Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397267.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_204.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6982396
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 27749 characters in sequence are not A, C, G, or T
File 11 of 12
Found at i:6296158 original size:22 final size:22
Alignment explanation
Indices: 6296089--6296158 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
6296079 GCTTACTTGA
* *
6296089 AGATTTTGAAGATTGTATTCGAAG
1 AGATTTTGAAAATTGTA--CTAAG
*
6296113 -GA-TTTGAAAATTGCTTACTTAG
1 AGATTTTGAAAATTG--TACTAAG
6296135 AGATTTTGAAAATTGTACTAAG
1 AGATTTTGAAAATTGTACTAAG
6296157 AG
1 AG
6296159 GATATAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
22 21 0.55
23 4 0.11
24 13 0.34
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.37
Consensus pattern (22 bp):
AGATTTTGAAAATTGTACTAAG
Found at i:6296161 original size:46 final size:46
Alignment explanation
Indices: 6296079--6296175 Score: 117
Period size: 46 Copynumber: 2.1 Consensus size: 46
6296069 ATTCAAAAGC
* ** * *
6296079 GCTTACTTGAAGATTTTGAAGATTGTATTCGAAGGATTTGAAAATT
1 GCTTACTTGAAGATTTTGAAAATTGTATAAGAAGGATATAAAAATT
6296125 GCTTACTT-AGAGATTTTGAAAATTGTACTAAG-AGGATATAAAAATT
1 GCTTACTTGA-AGATTTTGAAAATTGTA-TAAGAAGGATATAAAAATT
6296171 GCTTA
1 GCTTA
6296176 AGCAAAGGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
45 1 0.02
46 41 0.93
47 2 0.05
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (46 bp):
GCTTACTTGAAGATTTTGAAAATTGTATAAGAAGGATATAAAAATT
Found at i:6298686 original size:2 final size:2
Alignment explanation
Indices: 6298679--6298717 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6298669 ACACAAAAGA
6298679 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6298718 AATTGAATGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6308603 original size:3 final size:3
Alignment explanation
Indices: 6308595--6308629 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6308585 GAAATCTACG
6308595 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6308630 TATGTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6308892 original size:27 final size:28
Alignment explanation
Indices: 6308861--6308937 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 28
6308851 TAAAGTAAAA
6308861 AAATATTTAGTTATAAAATAATAATAA-T
1 AAATATTTAGTTATAAAATAATAA-AAGT
* *
6308889 -AATAATGAG-T-TAAAAT-ATAAAAGGT
1 AAATATTTAGTTATAAAATAATAAAA-GT
*
6308914 AAATATTTAGTTATAAAAAAATAA
1 AAATATTTAGTTATAAAATAATAA
6308938 GTATAGAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
23 2 0.05
24 4 0.11
25 7 0.18
26 8 0.21
27 8 0.21
28 5 0.13
29 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (28 bp):
AAATATTTAGTTATAAAATAATAAAAGT
Found at i:6310402 original size:21 final size:21
Alignment explanation
Indices: 6310376--6310437 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
6310366 ACCTTGCCTA
6310376 GGTTTTCATCAAGAGCTATTT
1 GGTTTTCATCAAGAGCTATTT
* *
6310397 GGTTTTTATCAAGAGCTGTTT
1 GGTTTTCATCAAGAGCTATTT
6310418 GGTTTTCATCAAGAGCTATT
1 GGTTTTCATCAAGAGCTATT
6310438 ACATCAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.44
Consensus pattern (21 bp):
GGTTTTCATCAAGAGCTATTT
Found at i:6310569 original size:18 final size:18
Alignment explanation
Indices: 6310546--6310584 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6310536 CTCATGATGA
6310546 TGCAAGGAAGG-CTTCACT
1 TGCAAGG-AGGCCTTCACT
*
6310564 TGCAAGGAGGCCTTCATT
1 TGCAAGGAGGCCTTCACT
6310582 TGC
1 TGC
6310585 TGGACTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (18 bp):
TGCAAGGAGGCCTTCACT
Found at i:6317292 original size:14 final size:13
Alignment explanation
Indices: 6317273--6317339 Score: 57
Period size: 12 Copynumber: 5.0 Consensus size: 13
6317263 TTATTATATT
6317273 AATTATTTAATAAA
1 AATTATTTAA-AAA
*
6317287 AATTATTTTAAAA
1 AATTATTTAAAAA
6317300 AATTA-TTAAAAA
1 AATTATTTAAAAA
*
6317312 ATATATAATATAAAAA
1 A-AT-T-ATTTAAAAA
*
6317328 AA-AATTTAAAAA
1 AATTATTTAAAAA
6317340 TCTTGGCCCC
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
12 15 0.34
13 10 0.23
14 10 0.23
15 2 0.05
16 7 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTATTTAAAAA
Found at i:6317302 original size:13 final size:14
Alignment explanation
Indices: 6317273--6317306 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
6317263 TTATTATATT
6317273 AATTATTTAATAAA
1 AATTATTTAATAAA
*
6317287 AATTATTTTA-AAA
1 AATTATTTAATAAA
6317300 AATTATT
1 AATTATT
6317307 AAAAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTATTTAATAAA
Found at i:6317856 original size:20 final size:18
Alignment explanation
Indices: 6317829--6317875 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
6317819 TGTCCTTCTC
6317829 TCTTTTTTTTTAATTTTT
1 TCTTTTTTTTTAATTTTT
6317847 TCTTTTTTTTTAATTTTT
1 TCTTTTTTTTTAATTTTT
6317865 TCTCTTTTTTT
1 TCT-TTTTTTT
6317876 GTTGGACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (18 bp):
TCTTTTTTTTTAATTTTT
Found at i:6326707 original size:96 final size:96
Alignment explanation
Indices: 6326537--6326730 Score: 282
Period size: 96 Copynumber: 2.0 Consensus size: 96
6326527 AGCTTGGCTC
* * * * *
6326537 ATCTTCGAGGGAATCTTAAGATAATAGGATTGGGAAATGTGAGAACAGGGAATAAGGCAGGGGAT
1 ATCTTCAAGGGAATCTTAAGATAATAGGATTGGAAAATGAGAGAACAGGGAATAAGGCAGAGCAT
* * *
6326602 GCAGGACTTCGGAATGAGACTGGCGTCCGTA
66 GCAGGACTTCAGAATAAGACTGGCCTCCGTA
*
6326633 ATCTTCAAGGGAATCTTAAGATAATAGGATTGGAAAATGAGAGAACAGGGAATGAGGCAGAGCAT
1 ATCTTCAAGGGAATCTTAAGATAATAGGATTGGAAAATGAGAGAACAGGGAATAAGGCAGAGCAT
*
6326698 GC-GATACTTCAGAATAAGACTGGCCTCCGTA
66 GCAG-GACTTCAGAATAAGACTGGCCTCCGTA
6326729 AT
1 AT
6326731 TTGACTCTAT
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 1 0.01
96 86 0.99
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.21
Consensus pattern (96 bp):
ATCTTCAAGGGAATCTTAAGATAATAGGATTGGAAAATGAGAGAACAGGGAATAAGGCAGAGCAT
GCAGGACTTCAGAATAAGACTGGCCTCCGTA
Found at i:6326805 original size:33 final size:33
Alignment explanation
Indices: 6326763--6326828 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
6326753 ATGCCAAAAC
6326763 TAAGAGAATTACGGATGAAGCATCTGTTCTTGA
1 TAAGAGAATTACGGATGAAGCATCTGTTCTTGA
6326796 TAAGAGAATTACGGATGAAGCATCTGTTCTTGA
1 TAAGAGAATTACGGATGAAGCATCTGTTCTTGA
6326829 AGCCTTACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (33 bp):
TAAGAGAATTACGGATGAAGCATCTGTTCTTGA
Found at i:6330375 original size:13 final size:13
Alignment explanation
Indices: 6330343--6330368 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6330333 TTGGTATTTC
6330343 AATAATGTGTAGA
1 AATAATGTGTAGA
6330356 AATAATGTGTAGA
1 AATAATGTGTAGA
6330369 GTAAATGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
AATAATGTGTAGA
Found at i:6338986 original size:70 final size:70
Alignment explanation
Indices: 6338869--6339003 Score: 216
Period size: 70 Copynumber: 1.9 Consensus size: 70
6338859 TAAAACTAAC
* *
6338869 TATTAAATAAAAAATTATTTTGAAAGCCATTAAAAACATATATAATAAATAAAATTGTATTGAAA
1 TATTAAATAAAAAATTATTTTGAAAGCCATTAAAAACATATAGAATAAACAAAATTGTATTGAAA
6338934 TTAAT
66 TTAAT
* * * *
6338939 TATTAAATGAAAAATTATTTTGAAAGCTATTAAAAATATATGGAATAAACAAAATTGTATTGAAA
1 TATTAAATAAAAAATTATTTTGAAAGCCATTAAAAACATATAGAATAAACAAAATTGTATTGAAA
6339004 GAAATATAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (70 bp):
TATTAAATAAAAAATTATTTTGAAAGCCATTAAAAACATATAGAATAAACAAAATTGTATTGAAA
TTAAT
Found at i:6351701 original size:19 final size:19
Alignment explanation
Indices: 6351661--6351731 Score: 50
Period size: 19 Copynumber: 4.2 Consensus size: 19
6351651 TACAATAATG
* *
6351661 TTATTTTTTTATATTTTAA
1 TTATTATTTTATATTATAA
6351680 TTATTATTTTAT-TTAT-A
1 TTATTATTTTATATTATAA
*
6351697 -TATTA---AATATTATAA
1 TTATTATTTTATATTATAA
*
6351712 -TATTATTTT-TTTTATAA
1 TTATTATTTTATATTATAA
6351729 TTA
1 TTA
6351732 CATTACATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 13
0.69 0.08 0.22
Matches are distributed among these distances:
13 2 0.05
14 4 0.10
15 6 0.15
16 5 0.12
17 8 0.20
18 5 0.12
19 11 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTATTTTATATTATAA
Found at i:6351702 original size:23 final size:22
Alignment explanation
Indices: 6351661--6351709 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
6351651 TACAATAATG
* *
6351661 TTATTTTTTTATATTTTAATTA
1 TTATTTTTTTATATATTAAATA
6351683 TTATTTTATTTATATATTAAATA
1 TTATTTT-TTTATATATTAAATA
6351706 TTAT
1 TTAT
6351710 AATATTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATTTTTTTATATATTAAATA
Found at i:6351715 original size:23 final size:23
Alignment explanation
Indices: 6351668--6351715 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
6351658 ATGTTATTTT
* * **
6351668 TTTATATTTTAATTATTATTTTA
1 TTTATATATTAAATATTATAATA
6351691 TTTATATATTAAATATTATAATA
1 TTTATATATTAAATATTATAATA
6351714 TT
1 TT
6351716 ATTTTTTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTATATATTAAATATTATAATA
Found at i:6351717 original size:31 final size:31
Alignment explanation
Indices: 6351671--6351731 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
6351661 TTATTTTTTT
*
6351671 ATATTTTAATTATTATTTTATTTATATATTAA
1 ATATTATAATTATTATTTTATTTATA-ATTAA
*
6351703 ATATTATAA-TATTATTTTTTTTATAATTA
1 ATATTATAATTATTATTTTATTTATAATTA
6351732 CATTACATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 4 0.15
31 15 0.56
32 8 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (31 bp):
ATATTATAATTATTATTTTATTTATAATTAA
Found at i:6352381 original size:6 final size:6
Alignment explanation
Indices: 6352370--6352437 Score: 59
Period size: 6 Copynumber: 11.3 Consensus size: 6
6352360 CCATACATAC
* * *
6352370 ATACAT ATACAT AT--AT ATATAT ATACAC ATACAT ACATATAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT --ATACAT ATACAT
* *
6352418 ATATAT ATATAT ATACAT AT
1 ATACAT ATACAT ATACAT AT
6352438 CTCAACAGCT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
4 4 0.08
6 42 0.82
8 5 0.10
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (6 bp):
ATACAT
Found at i:6352381 original size:10 final size:10
Alignment explanation
Indices: 6352366--6352430 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
6352356 ACTACCATAC
6352366 ATACATACAT
1 ATACATACAT
*
6352376 ATACATATATAT
1 ATAC--ATACAT
* *
6352388 ATATATACAC
1 ATACATACAT
6352398 ATACATACAT
1 ATACATACAT
*
6352408 ATATATACAT
1 ATACATACAT
* *
6352418 ATATATATAT
1 ATACATACAT
6352428 ATA
1 ATA
6352431 TACATATCTC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
10 37 0.82
12 8 0.18
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (10 bp):
ATACATACAT
Found at i:6352399 original size:18 final size:18
Alignment explanation
Indices: 6352374--6352437 Score: 101
Period size: 18 Copynumber: 3.6 Consensus size: 18
6352364 ACATACATAC
6352374 ATATACATATATATATAT
1 ATATACATATATATATAT
* * *
6352392 ATACACATACATACATAT
1 ATATACATATATATATAT
6352410 ATATACATATATATATAT
1 ATATACATATATATATAT
6352428 ATATACATAT
1 ATATACATAT
6352438 CTCAACAGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATACATATATATATAT
Found at i:6352408 original size:36 final size:36
Alignment explanation
Indices: 6352361--6352436 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
6352351 TGTAAACTAC
6352361 CATACATACATACATATACATATATATATATATACA
1 CATACATACATACATATACATATATATATATATACA
* *
6352397 CATACATACATATATATACATATATATATATATATA
1 CATACATACATACATATACATATATATATATATACA
6352433 CATA
1 CATA
6352437 TCTCAACAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (36 bp):
CATACATACATACATATACATATATATATATATACA
Found at i:6352413 original size:4 final size:4
Alignment explanation
Indices: 6352374--6352437 Score: 65
Period size: 4 Copynumber: 16.0 Consensus size: 4
6352364 ACATACATAC
* * * * * *
6352374 ATAT ACAT ATAT ATAT ATAT ACAC ATAC ATAC ATAT ATAT ACAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
*
6352422 ATAT ATAT ATAC ATAT
1 ATAT ATAT ATAT ATAT
6352438 CTCAACAGCT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (4 bp):
ATAT
Found at i:6352431 original size:10 final size:10
Alignment explanation
Indices: 6352374--6352437 Score: 65
Period size: 10 Copynumber: 6.4 Consensus size: 10
6352364 ACATACATAC
*
6352374 ATATACATAT
1 ATATATATAT
6352384 ATATATATAT
1 ATATATATAT
* * *
6352394 ACACATACAT
1 ATATATATAT
*
6352404 ACATATATAT
1 ATATATATAT
*
6352414 ACATATATAT
1 ATATATATAT
*
6352424 ATATATATAC
1 ATATATATAT
6352434 ATAT
1 ATAT
6352438 CTCAACAGCT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 46 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (10 bp):
ATATATATAT
Found at i:6374708 original size:15 final size:15
Alignment explanation
Indices: 6374659--6374699 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
6374649 TTTTCCCTAT
6374659 AATCACATTACTTGC
1 AATCACATTACTTGC
*
6374674 AATCACATTACTTAC
1 AATCACATTACTTGC
6374689 AATCACATTAC
1 AATCACATTAC
6374700 CTGTAATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.39, C:0.27, G:0.02, T:0.32
Consensus pattern (15 bp):
AATCACATTACTTGC
Found at i:6396759 original size:25 final size:25
Alignment explanation
Indices: 6396731--6396788 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
6396721 AGAATGGGTG
* *
6396731 AAATAAAAATAATATTTTAAT-AAT
1 AAATAAAAATAATAATTGAATAAAT
* *
6396755 AAAATAATAATGATAATTGAATAAAT
1 -AAATAAAAATAATAATTGAATAAAT
6396781 AAATAAAA
1 AAATAAAA
6396789 TATTAAAAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 24 0.89
26 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (25 bp):
AAATAAAAATAATAATTGAATAAAT
Found at i:6397858 original size:27 final size:27
Alignment explanation
Indices: 6397802--6397858 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
6397792 ATTTAAACTT
* * *
6397802 TATTTATGTAATTTATTTATTTTTTTA
1 TATTTATGTAATTTATTTAGTTTGTAA
6397829 TATTTGATGTAATTTA-TTAGTTTGTAA
1 TATTT-ATGTAATTTATTTAGTTTGTAA
6397856 TAT
1 TAT
6397859 GTTTTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (27 bp):
TATTTATGTAATTTATTTAGTTTGTAA
Found at i:6397919 original size:15 final size:17
Alignment explanation
Indices: 6397889--6397931 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
6397879 GAATTAAATC
6397889 ATAAAATAATTTTATTA
1 ATAAAATAATTTTATTA
6397906 ATAAAA-AA-TTTATTA
1 ATAAAATAATTTTATTA
*
6397921 AGTAGAATAAT
1 A-TAAAATAAT
6397932 AAAAATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 8 0.36
16 6 0.27
17 8 0.36
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
ATAAAATAATTTTATTA
Found at i:6409647 original size:31 final size:31
Alignment explanation
Indices: 6409609--6409668 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
6409599 AATCTTTGTT
6409609 AAAGACATGATATATAACTATAACACAAAGC
1 AAAGACATGATATATAACTATAACACAAAGC
*
6409640 AAAGACATGATATATTACTATAACACAAA
1 AAAGACATGATATATAACTATAACACAAA
6409669 ATAAAGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.55, C:0.15, G:0.08, T:0.22
Consensus pattern (31 bp):
AAAGACATGATATATAACTATAACACAAAGC
Found at i:6409675 original size:31 final size:31
Alignment explanation
Indices: 6409608--6409675 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
6409598 TAATCTTTGT
*
6409608 TAAAGACATGATATATAACTATAACACAAAG
1 TAAAGACATGATATATAACTATAACACAAAA
* *
6409639 CAAAGACATGATATATTACTATAACACAAAA
1 TAAAGACATGATATATAACTATAACACAAAA
6409670 TAAAGA
1 TAAAGA
6409676 GAAGTTGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.56, C:0.13, G:0.09, T:0.22
Consensus pattern (31 bp):
TAAAGACATGATATATAACTATAACACAAAA
Found at i:6423009 original size:2 final size:2
Alignment explanation
Indices: 6423002--6423027 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6422992 GTAATTGACA
6423002 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6423028 GCTTTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6425128 original size:92 final size:92
Alignment explanation
Indices: 6424993--6425278 Score: 308
Period size: 92 Copynumber: 3.1 Consensus size: 92
6424983 TAGAGTTTGG
* ** * * * *
6424993 TGACAC-ACCATGGAGGGAATCTGTGACACTCCA-AAGTTTAGAGTTTGTGACACGGCATGAAGG
1 TGACACGA-CATGAAGGGAATCTGTGACACAACAGGA-TTCAGAGTTTGTGACACGCCATGGAGG
*
6425056 GAATTTGTGACACGCTAGAGTTCAGAGTT
64 GAATCTGTGACACGCTAGAGTTCAGAGTT
* * * * *
6425085 TGACACGGCATGGATGGAATCTGTGATACAACAGTATTCAGAGTTTGTGACACGCCATGGAGGGA
1 TGACACGACATGAAGGGAATCTGTGACACAACAGGATTCAGAGTTTGTGACACGCCATGGAGGGA
* * *
6425150 ATCTGTGATATGCTAGAGTTTAGAGTT
66 ATCTGTGACACGCTAGAGTTCAGAGTT
* * * *
6425177 TGACACGACATGAAGGGAATCTGTGACACAGCAGGGTTCA-AGGATTGTGACACACCATGGAGGG
1 TGACACGACATGAAGGGAATCTGTGACACAACAGGATTCAGA-GTTTGTGACACGCCATGGAGGG
* *
6425241 AATCTGTGAGACGCTAGTGTTCAGAGTT
65 AATCTGTGACACGCTAGAGTTCAGAGTT
6425269 GGTGACACGA
1 --TGACACGA
6425279 TAGCGAAAGA
Statistics
Matches: 163, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
91 1 0.01
92 153 0.94
93 1 0.01
94 8 0.05
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (92 bp):
TGACACGACATGAAGGGAATCTGTGACACAACAGGATTCAGAGTTTGTGACACGCCATGGAGGGA
ATCTGTGACACGCTAGAGTTCAGAGTT
Found at i:6425228 original size:139 final size:139
Alignment explanation
Indices: 6424984--6425277 Score: 357
Period size: 139 Copynumber: 2.1 Consensus size: 139
6424974 GGCAAGGTTT
* *
6424984 AGAGTTTGGTGACACACCATGGAGGGAATCTGTGACACTCCAAAGTTTAGAGTTTGTGACACGGC
1 AGAGTTT-GTGACACGCCATGGAGGGAATCTGTGACACTCCAAAGTTTAGAGTTTGTGACACGAC
* ** * *
6425049 ATGAAGGGAATTTGTGACACGCTAGAGTTCAGAGTTTGACACGGCATGGATGGAATCTGTGATAC
65 ATGAAGGGAATCTGTGACACGCTAGAGTTCAGAGTTTGACACACCATGGAGGGAATCTGTGAGAC
6425114 AAC-AGTATTC
130 -ACTAGTATTC
* * *
6425124 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGATA-TGCTAGAGTTTAGAG-TT-TGACACGAC
1 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACT-CCAAAGTTTAGAGTTTGTGACACGAC
*
6425186 ATGAAGGGAATCTGTGACACAGC-AGGGTTCA-AGGATTGTGACACACCATGGAGGGAATCTGTG
65 ATGAAGGGAATCTGTGACAC-GCTAGAGTTCAGA-G-TT-TGACACACCATGGAGGGAATCTGTG
* *
6425249 AGACGCTAGTGTTC
126 AGACACTAGTATTC
*
6425263 AGAGTTGGTGACACG
1 AGAGTTTGTGACACG
6425278 ATAGCGAAAG
Statistics
Matches: 134, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
136 1 0.01
137 35 0.26
138 8 0.06
139 83 0.62
140 7 0.05
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.25
Consensus pattern (139 bp):
AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACTCCAAAGTTTAGAGTTTGTGACACGACA
TGAAGGGAATCTGTGACACGCTAGAGTTCAGAGTTTGACACACCATGGAGGGAATCTGTGAGACA
CTAGTATTC
Found at i:6425274 original size:47 final size:46
Alignment explanation
Indices: 6424966--6425276 Score: 251
Period size: 47 Copynumber: 6.7 Consensus size: 46
6424956 GAAACAGGGT
* *
6424966 TGTGACACGGCAAG-GTTTAGAGTTTGGTGACACACCATGGAGGGAATC
1 TGTGACAC-GCTAGAGTTCAGAG-TT-GTGACACACCATGGAGGGAATC
* * * * ** * *
6425014 TGTGACACTCCAAAGTTTAGAGTTTGTGACACGGCATGAAGGGAATT
1 TGTGACACGCTAGAGTTCAGAG-TTGTGACACACCATGGAGGGAATC
** *
6425061 TGTGACACGCTAGAGTTCAGAGTT-TGACACGGCATGGATGGAATC
1 TGTGACACGCTAGAGTTCAGAGTTGTGACACACCATGGAGGGAATC
* * *
6425106 TGTGATACAAC-AGTA-TTCAGAGTTTGTGACACGCCATGGAGGGAATC
1 TGTGACAC-GCTAG-AGTTCAGAG-TTGTGACACACCATGGAGGGAATC
* * * *
6425153 TGTGATATGCTAGAGTTTAGAGTT-TGACACGA-CATGAAGGGAATC
1 TGTGACACGCTAGAGTTCAGAGTTGTGACAC-ACCATGGAGGGAATC
*
6425198 TGTGACACAGC-AGGGTTCA-AGGATTGTGACACACCATGGAGGGAATC
1 TGTGACAC-GCTAGAGTTCAGA-G-TTGTGACACACCATGGAGGGAATC
* *
6425245 TGTGAGACGCTAGTGTTCAGAGTTGGTGACAC
1 TGTGACACGCTAGAGTTCAGAGTT-GTGACAC
6425277 GATAGCGAAA
Statistics
Matches: 217, Mismatches: 30, Indels: 33
0.77 0.11 0.12
Matches are distributed among these distances:
44 1 0.00
45 65 0.30
46 19 0.09
47 112 0.52
48 20 0.09
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (46 bp):
TGTGACACGCTAGAGTTCAGAGTTGTGACACACCATGGAGGGAATC
Found at i:6434031 original size:50 final size:50
Alignment explanation
Indices: 6433968--6434069 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
6433958 CTTACTGGTT
* *
6433968 TTTCAATAGTAGCTAACTCATCACATATTGCTTTGAACTCTCTAATGTAG
1 TTTCAATAATAGCTAACTCATCACAGATTGCTTTGAACTCTCTAATGTAG
6434018 TTTCAATAATAGCTAACTCATCACAGATTGCTTTGAACTCTCTAATGTAG
1 TTTCAATAATAGCTAACTCATCACAGATTGCTTTGAACTCTCTAATGTAG
6434068 TT
1 TT
6434070 ATGAATGGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (50 bp):
TTTCAATAATAGCTAACTCATCACAGATTGCTTTGAACTCTCTAATGTAG
Found at i:6451909 original size:3 final size:3
Alignment explanation
Indices: 6451903--6451935 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
6451893 CATGACAACA
*
6451903 AAT AAT AAT AAT AAA AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6451936 TTTTGTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:6454383 original size:23 final size:23
Alignment explanation
Indices: 6454357--6454424 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
6454347 GAGAGATGAT
*
6454357 ATGGTAAGAATATGTGACACGTC
1 ATGGTAAGAATATGTGACACGGC
*
6454380 ATGGTATA-AATATGTGAGACGGC
1 ATGGTA-AGAATATGTGACACGGC
* *
6454403 ATGGTGAGCATATGTGACACGG
1 ATGGTAAGAATATGTGACACGG
6454425 TTGTGACGCG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
22 1 0.03
23 36 0.95
24 1 0.03
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.25
Consensus pattern (23 bp):
ATGGTAAGAATATGTGACACGGC
Found at i:6454578 original size:23 final size:23
Alignment explanation
Indices: 6454541--6454624 Score: 64
Period size: 23 Copynumber: 3.7 Consensus size: 23
6454531 GGGTTTAGAG
**
6454541 TTTGTGACATGACATGGTGAAAA
1 TTTGTGACACAACATGGTGAAAA
*
6454564 TTTGTGACACAACATGTTG-AAA
1 TTTGTGACACAACATGGTGAAAA
* * **
6454586 TCGTGTGAGACGGCATGGT-AAAA
1 T-TTGTGACACAACATGGTGAAAA
* *
6454609 TATGTGACACACCATG
1 TTTGTGACACAACATG
6454625 ATAAGCATAT
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
22 15 0.32
23 32 0.68
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (23 bp):
TTTGTGACACAACATGGTGAAAA
Found at i:6454676 original size:23 final size:23
Alignment explanation
Indices: 6454607--6454677 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 23
6454597 GGCATGGTAA
* **
6454607 AATATGTGACACACCATGATAAG
1 AATATGTGACACACCATGGTTTG
* * * *
6454630 CATATGTGGCACACCATTGCTTG
1 AATATGTGACACACCATGGTTTG
6454653 AATATGTGACACACCATGGTTTG
1 AATATGTGACACACCATGGTTTG
6454676 AA
1 AA
6454678 ATAGTAAAAA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (23 bp):
AATATGTGACACACCATGGTTTG
Found at i:6457590 original size:341 final size:339
Alignment explanation
Indices: 6456898--6458006 Score: 1152
Period size: 341 Copynumber: 3.3 Consensus size: 339
6456888 AATTACTATT
* *
6456898 TTATATATATACTTTT-AATATAAATATGTTTACTTTATATTTTGTGTTAACATTACAAAAATTA
1 TTATATATATA-TTTTAAATATAAATATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTA
* *
6456962 TAACTTATAAAATTAATAATTATAATATATATACCA-TTGTTTATATAAACTTATAATATATATA
65 TAACTTATAAAATTATTAATTATAATATATATA-CATTTGTTTATATAAACTTATAATATATAAA
* * * **
6457026 CTTAAAGAG-AGCTCT-TGAGATTAGAATAGTTTTGGAATCTAACTATTTTTTATTTTAATTTCA
129 CCTAAAGAGAAG-T-TGTGAGATTAGAATAGTTTTGAAACCTAGTTA-TTTTTATTTTAATTTCA
* * ** * *
6457089 TGAAATGAAGGACAAGTTTATATAGTTAATTAAATTAATTCATGAAACTATGATTATTAATTAAT
191 TGTAATTAAGGACAAACTCATATAGTTAATTAAATTAATTCATGAAACTATGATTATTAATTAAC
* * *
6457154 TTATAATGTCTTTTAATATATATAGTTTATATAT-TGTGTTAATTTATAAGAAATATAAGTACTA
256 TTATAATGTCTTTTAATATATAAACTTTATATATAT-TGTTCATTTATAAG-AATAT-A-TACTA
*
6457218 TTATATATATACTAAA-A-TATT--T-
317 -TATAT-TAT--TAAATACTTTTAGTA
* * *
6457240 TTA-ATATATATTTTAAATATAAATGTATTTACTTTCTGTTTTGTGTTAACATTACAAAAATTTT
1 TTATATATATATTTTAAATATAAATATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTAT
*
6457304 AACTTATAAAATTATTAATTATAATATATATACATTTGTTTATATAAACTTATAACATATAAACC
66 AACTTATAAAATTATTAATTATAATATATATACATTTGTTTATATAAACTTATAATATATAAACC
* * * * *
6457369 CAAAGAGAAGTTGT-AGATTAAAATAATTTTGAAACCTAGTTATTTTT-TTTAAATTTTATGTAA
131 TAAAGAGAAGTTGTGAGATTAGAATAGTTTTGAAACCTAGTTATTTTTATTTTAATTTCATGTAA
*
6457432 TTAAGGACAAACTCATATAGTTAATTAAATTAATTCATGAAACTATAATTATTAATT-ACTTATA
196 TTAAGGACAAACTCATATAGTTAATTAAATTAATTCATGAAACTATGATTATTAATTAACTTATA
* *
6457496 ATGTCTTAT-ATATATAAACTTTATATATATTAGTTCATTTATGAGAATATATACTCATATATGT
261 ATGTCTTTTAATATATAAACTTTATATATATT-GTTCATTTATAAGAATATATACT-ATATAT-T
6457560 ATTAAATACTTTTAGTATATACA
323 ATTAAATACTTTTAG----T--A
*
6457583 TATATATATATATTATTATTTTAGATATAAACATATTTACTTTCTATTTT-TGTTAACATTAC-A
1 T-TATATATATATT-TTA----A-ATATAAATATATTTACTTTCTATTTTGTGTTAACATTACAA
* * *
6457646 AAATTATAACTTATAAACTT-TTAATTACAATATATGTAC-TTTGTTTATATAAACTT-TAATAT
59 AAATTATAACTTATAAAATTATTAATTATAATATATATACATTTGTTTATATAAACTTATAATAT
* * * *
6457708 A-AAATCTTAAG-GTAAGTTGTGACATTAGAATAGTTTTGAAACTTAGTT-TTTTTATTATTAAT
124 ATAAACCTAAAGAG-AAGTTGTGAGATTAGAATAGTTTTGAAACCTAGTTATTTTTATT-TTAAT
* * * *
6457770 TTCATGTTATTAAAGACAAACTCATATAG-TAATTAAATTAA-T-AAGAAATTATGATTA-TAAT
187 TTCATGTAATTAAGGACAAACTCATATAGTTAATTAAATTAATTCATGAAACTATGATTATTAAT
* * *
6457831 TAACTTGTAATGTCTTTTAATATATATAAC-TTATATACATTGGGTTCATTTGTAAGAAATATCA
252 TAACTTATAATGTCTTTTAATATATA-AACTTTATATATATT--GTTCATTTATAAG-AATAT-A
* *
6457895 TTACTAT-TATATATAAAATAATTTTAG--
312 -TACTATATAT-TATTAAATACTTTTAGTA
* * * * *
6457922 -TATATATACACTTTAAAAATAAATACATTTACTTTCTA-TTTGTTGTTAAAATTACAAAAATT-
1 TTATATATATATTTTAAATATAAATATATTTACTTTCTATTTTG-TGTTAACATTACAAAAATTA
6457984 TAACTTATAAAATTATTAATTAT
65 TAACTTATAAAATTATTAATTAT
6458007 GTTCAAGATA
Statistics
Matches: 655, Mismatches: 71, Indels: 91
0.80 0.09 0.11
Matches are distributed among these distances:
330 3 0.00
331 19 0.03
332 29 0.04
333 14 0.02
334 15 0.02
335 2 0.00
336 26 0.04
337 36 0.05
338 65 0.10
339 5 0.01
340 30 0.05
341 117 0.18
342 5 0.01
343 6 0.01
344 29 0.04
345 46 0.07
346 60 0.09
347 69 0.11
348 20 0.03
349 23 0.04
350 13 0.02
351 23 0.04
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (339 bp):
TTATATATATATTTTAAATATAAATATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTAT
AACTTATAAAATTATTAATTATAATATATATACATTTGTTTATATAAACTTATAATATATAAACC
TAAAGAGAAGTTGTGAGATTAGAATAGTTTTGAAACCTAGTTATTTTTATTTTAATTTCATGTAA
TTAAGGACAAACTCATATAGTTAATTAAATTAATTCATGAAACTATGATTATTAATTAACTTATA
ATGTCTTTTAATATATAAACTTTATATATATTGTTCATTTATAAGAATATATACTATATATTATT
AAATACTTTTAGTA
Found at i:6459815 original size:2 final size:2
Alignment explanation
Indices: 6459810--6459845 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6459800 GAACGAATGA
6459810 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6459846 TCTTACACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6461309 original size:15 final size:15
Alignment explanation
Indices: 6461289--6461318 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6461279 GATTTATTTT
*
6461289 TAAAAATTAAAATCA
1 TAAAAAATAAAATCA
6461304 TAAAAAATAAAATCA
1 TAAAAAATAAAATCA
6461319 ATGTAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAAAAATAAAATCA
Found at i:6461478 original size:19 final size:20
Alignment explanation
Indices: 6461454--6461506 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
6461444 AATATATGAG
*
6461454 TAAATAAAAAAGAAATAA-A
1 TAAATAAAAAAAAAATAATA
6461473 TAAATAAAAATAAAAATAATA
1 TAAATAAAAA-AAAAATAATA
6461494 TAAATTAAAAAAA
1 TAAA-TAAAAAAA
6461507 TAAAAAAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 10 0.33
20 7 0.23
21 7 0.23
22 6 0.20
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (20 bp):
TAAATAAAAAAAAAATAATA
Found at i:6461493 original size:15 final size:14
Alignment explanation
Indices: 6461466--6461512 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
6461456 AATAAAAAAG
*
6461466 AAATAAATAAATAA
1 AAATAAAAAAATAA
6461480 AAATAAAAATAATATA
1 AAATAAAAA-AATA-A
*
6461496 AATTAAAAAAATAA
1 AAATAAAAAAATAA
6461510 AAA
1 AAA
6461513 AAACTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 11 0.39
15 8 0.29
16 9 0.32
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAAAAAATAA
Found at i:6461522 original size:25 final size:25
Alignment explanation
Indices: 6461455--6461515 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
6461445 ATATATGAGT
6461455 AAATAAAAAAGAA-ATAAATAAATAA
1 AAATAAAAAA-AATATAAATAAATAA
* *
6461480 AAATAAAAATAATATAAATTAA-AA
1 AAATAAAAAAAATATAAATAAATAA
6461504 AAATAAAAAAAA
1 AAATAAAAAAAA
6461516 CTTTAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 15 0.47
25 17 0.53
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (25 bp):
AAATAAAAAAAATATAAATAAATAA
Found at i:6474793 original size:19 final size:21
Alignment explanation
Indices: 6474746--6474794 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 21
6474736 CTCCAACAAT
*
6474746 TTTTA-AATTTTTATAATTTA
1 TTTTATAATTTTTATAATATA
6474766 TTTT-T-ATTTTT-TAA-ATA
1 TTTTATAATTTTTATAATATA
6474783 TTTTATAATTTT
1 TTTTATAATTTT
6474795 GTCCCTTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 6 0.24
18 4 0.16
19 11 0.44
20 4 0.16
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTATAATTTTTATAATATA
Found at i:6474919 original size:64 final size:61
Alignment explanation
Indices: 6474743--6474939 Score: 234
Period size: 63 Copynumber: 3.1 Consensus size: 61
6474733 CCCCTCCAAC
6474743 AATTTTTAAATTTTTATAATTTATTTTTATTTTTTAAATATTTTATAATTTTGTCCCT-TCAAT
1 AATTTTTAAATTTTTATAA-TTATTTTTATTTTTTAAA-ATTTTATAATTTTGTCCCTAT-AAT
*** * * *
6474806 AATTTTTAAATTTTTATAACTTGCCTTTACTTTTTAGACATTTTATAATTTTGTCCCTATAAA
1 AATTTTTAAATTTTTATAA-TTATTTTTATTTTTTA-AAATTTTATAATTTTGTCCCTATAAT
* * *
6474869 AATTTTAAAATTTTTTTTAATATATTTTTATTTTTTTAAAATTTTATAATTTTATCCCTATAAT
1 AATTTTTAAA-TTTTTATAAT-TATTTTTA-TTTTTTAAAATTTTATAATTTTGTCCCTATAAT
6474933 AATTTTT
1 AATTTTT
6474940 GTTTAGTGAA
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
63 62 0.55
64 44 0.39
65 6 0.05
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (61 bp):
AATTTTTAAATTTTTATAATTATTTTTATTTTTTAAAATTTTATAATTTTGTCCCTATAAT
Found at i:6498747 original size:30 final size:30
Alignment explanation
Indices: 6498677--6498754 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
6498667 ATTAATTATT
* *
6498677 AATTATAAAAATTTATTTAACTAAAAATAA
1 AATTATAAAAATTTAATTAAATAAAAATAA
*
6498707 AAATATAAAAATTTAATTAAATATAATAA-AA
1 AATTATAAAAATTTAATTAAATA-AA-AATAA
*
6498738 AATTA-AAAAAATTAATT
1 AATTATAAAAATTTAATT
6498755 TTTTAAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 31 0.76
31 8 0.20
32 2 0.05
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (30 bp):
AATTATAAAAATTTAATTAAATAAAAATAA
Found at i:6498749 original size:21 final size:20
Alignment explanation
Indices: 6498711--6498753 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
6498701 AAATAAAAAT
* **
6498711 ATAAAAATTTAATTAAATATA
1 ATAAAAAATTAAAAAAAT-TA
6498732 ATAAAAAATTAAAAAAATTA
1 ATAAAAAATTAAAAAAATTA
6498752 AT
1 AT
6498754 TTTTTAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAAAATTAAAAAAATTA
Found at i:6499812 original size:17 final size:18
Alignment explanation
Indices: 6499776--6499818 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
6499766 ATATCGGTAG
6499776 ATTATTATAATAATAATT
1 ATTATTATAATAATAATT
* *
6499794 ATTA-TATAATGATATTT
1 ATTATTATAATAATAATT
*
6499811 ATAATTAT
1 ATTATTAT
6499819 TTTAAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATTATTATAATAATAATT
Found at i:6500483 original size:97 final size:96
Alignment explanation
Indices: 6500361--6500552 Score: 264
Period size: 97 Copynumber: 2.0 Consensus size: 96
6500351 TTACAAAAAT
* * * *
6500361 TATTAAAAAACTAGAAGACCTAACAACAGAATATCAAAATTTTA-AATTTTTTTGT-TTTTT-CA
1 TATTAAAAAAATAAAAGACCGAACAACAGAATATCAAAA-TCTAGAATTTTTTT-TATTTTTACA
*
6500423 AAGATTAAGAGAAAAAAAATTAAAATTCAAAATTG
64 AAAATT-A-AGAAAAAAAATTAAAATTCAAAATTG
*
6500458 TATTAAAAAAATAAAATACCGAACAACAGAATATCAAAATCTAGAATTTTTTTTATTTTTACAAA
1 TATTAAAAAAATAAAAGACCGAACAACAGAATATCAAAATCTAGAATTTTTTTTATTTTTACAAA
*
6500523 AATTAAGAAAAAAAATTAAAATTTAAAATT
66 AATTAAGAAAAAAAATTAAAATTCAAAATT
6500553 ACATTCAGAT
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
96 28 0.33
97 50 0.59
98 7 0.08
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (96 bp):
TATTAAAAAAATAAAAGACCGAACAACAGAATATCAAAATCTAGAATTTTTTTTATTTTTACAAA
AATTAAGAAAAAAAATTAAAATTCAAAATTG
Found at i:6502120 original size:22 final size:22
Alignment explanation
Indices: 6502094--6502136 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6502084 ATAACTTTCC
*
6502094 TAAAATATTTTAT-ATTATTATA
1 TAAAATATGTTATCATT-TTATA
6502116 TAAAATATGTTATCATTTTAT
1 TAAAATATGTTATCATTTTAT
6502137 GGAGTAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TAAAATATGTTATCATTTTATA
Found at i:6502654 original size:73 final size:73
Alignment explanation
Indices: 6502577--6502713 Score: 213
Period size: 73 Copynumber: 1.9 Consensus size: 73
6502567 CATATACTTA
* * *
6502577 TAAATATGCATTTATTAAAT-AATAATCATTAAAATATTTTTATTATAATTATTAGTTAGATTTA
1 TAAATATGCATTCATGAAATGAA-AATCATTAAAATATTTTTATTATAATTATTAGTAAGATTTA
6502641 AACCTGTTT
65 AACCTGTTT
* *
6502650 TAAATATGTATTCATGAAATGAAAATCATTGAAATATTTTTATTATAATTATTAGTAAGATTTA
1 TAAATATGCATTCATGAAATGAAAATCATTAAAATATTTTTATTATAATTATTAGTAAGATTTA
6502714 TTCAATTTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
73 56 0.97
74 2 0.03
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (73 bp):
TAAATATGCATTCATGAAATGAAAATCATTAAAATATTTTTATTATAATTATTAGTAAGATTTAA
ACCTGTTT
Found at i:6502833 original size:14 final size:13
Alignment explanation
Indices: 6502798--6502833 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
6502788 TAATTAAAAT
6502798 ATTAATATTTTAA
1 ATTAATATTTTAA
6502811 ATTAATATTTTAA
1 ATTAATATTTTAA
*
6502824 GTTAAATATT
1 ATT-AATATT
6502834 AATATTCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
ATTAATATTTTAA
Found at i:6505901 original size:31 final size:31
Alignment explanation
Indices: 6505866--6505948 Score: 121
Period size: 32 Copynumber: 2.6 Consensus size: 31
6505856 AGTTATTAAT
*
6505866 TCAATTACTTAAAAAGCTTAAAATTACTTAC
1 TCAATTACTTGAAAAGCTTAAAATTACTTAC
* *
6505897 TCAATCACCTGGAAAAGCTTAAAATTACTTAC
1 TCAATTA-CTTGAAAAGCTTAAAATTACTTAC
*
6505929 TCAATTACTTGAAATGCTTA
1 TCAATTACTTGAAAAGCTTA
6505949 GAAAGATGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 17 0.38
32 28 0.62
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (31 bp):
TCAATTACTTGAAAAGCTTAAAATTACTTAC
Found at i:6507062 original size:18 final size:18
Alignment explanation
Indices: 6507039--6507075 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6507029 AATCAACAGA
6507039 TAGTTTTTATGAACATGG
1 TAGTTTTTATGAACATGG
6507057 TAGTTTTTATGAACATGG
1 TAGTTTTTATGAACATGG
6507075 T
1 T
6507076 TTGGATGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (18 bp):
TAGTTTTTATGAACATGG
Found at i:6516704 original size:21 final size:22
Alignment explanation
Indices: 6516678--6516722 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
6516668 TTCTTTTATA
*
6516678 TTATAATTTAAA-AATTATATT
1 TTATAATATAAATAATTATATT
*
6516699 TTATAATATAAATAGTTATATT
1 TTATAATATAAATAATTATATT
6516721 TT
1 TT
6516723 TGTAACGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTATAATATAAATAATTATATT
Found at i:6517538 original size:26 final size:25
Alignment explanation
Indices: 6517500--6517551 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
6517490 TTTTTTTATT
*
6517500 TTTTTTAAAAATATAATA-ATAGTAA
1 TTTTTTAAAAATAAAATATATA-TAA
*
6517525 TTTTTTAATTAATAAAATATATATAA
1 TTTTTTAA-AAATAAAATATATATAA
6517551 T
1 T
6517552 AATAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 8 0.35
26 12 0.52
27 3 0.13
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
TTTTTTAAAAATAAAATATATATAA
Found at i:6517549 original size:35 final size:32
Alignment explanation
Indices: 6517507--6517573 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
6517497 ATTTTTTTTA
* *
6517507 AAAATATA-ATAATAGTAATTTTTTAATTAAT
1 AAAATATATATAATAATAATTTTTAAATTAAT
6517538 AAAATATATATAATAATAATTTTTAAATTAAT
1 AAAATATATATAATAATAATTTTTAAATTAAT
6517570 AAAA
1 AAAA
6517574 AATAAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
31 8 0.24
32 25 0.76
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (32 bp):
AAAATATATATAATAATAATTTTTAAATTAAT
Found at i:6518080 original size:32 final size:33
Alignment explanation
Indices: 6518033--6518101 Score: 131
Period size: 32 Copynumber: 2.1 Consensus size: 33
6518023 TAATTTTTTT
6518033 TAAAAAATATAATAATAGTAATTTTTAAATTAA
1 TAAAAAATATAATAATAGTAATTTTTAAATTAA
6518066 TAAAAAATAT-ATAATAGTAATTTTTAAATTAA
1 TAAAAAATATAATAATAGTAATTTTTAAATTAA
6518098 TAAA
1 TAAA
6518102 GAGTAAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 26 0.72
33 10 0.28
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (33 bp):
TAAAAAATATAATAATAGTAATTTTTAAATTAA
Found at i:6518216 original size:529 final size:510
Alignment explanation
Indices: 6517171--6518180 Score: 1180
Period size: 529 Copynumber: 2.0 Consensus size: 510
6517161 AATTTTTTAA
* * *
6517171 AAATTCCAACTAAACTCAATTTATATCAAAATTTTATTTTATCAGTAAATTTTATTACATTATTT
1 AAATTCCAACTAAACTCAATTTATATCAAAATTTAATTTTATCAATAAATTTTATTACATTACTT
* *
6517236 AATAAAATAAATTATTTTTTTGATAAAAAAATAAGATAAAATACTCCCATGCCCTTAAGTTTTAA
66 AATAAAATAAATTAATTTTTTGATAAAAAAATAAGATAAAATACTCCCACGCCCTTAAGTTTTAA
** * *
6517301 TTAAAATTTTAAACAAATTCATTAATTTTCGAAATAAATACTCTACATCTTCGTCTTAAAAATGT
131 TTAAAATTCCAAACAAATTCATTAATTTTCGAAATAAATACTATACATCTTCGTCTTAAAAATAT
* * * * *
6517366 AAACATTATTAACAGAAAATACTAAAATATCATTTTTCTTTATTAATTTAAAAAATTATTATTAT
196 AAACATTATGAACAGAAAATAATAAAATATCATATTTCTTTATTAATTTAAAAAATTATTATAAA
***** * *
6517431 ATGTTTTTGAAAAAAAAAAGTTGCTTCCCGAGGAGGGAGCACAAATTGGTGCTCTCTATTTTTTT
261 ATAAAAATGAAAAAAAAAAGTTGCTTCCCAAGGAGGGAGCACAAATTGGTGCTCTCTATTTTTGT
* * *
6517496 TATTTTTTTTAAAAATATAATAATAGTAATTTTTTAATTAATAAAATATATATAATAATAATTTT
326 AATTTTTTTTAAAAATATAATAATAGTAATTTTTAAATTAATAAAAAATATATAATAATAATTTT
* * *
6517561 TAAATTAATAAAAAATAAATTTTTCATTTTAATATTATCATACCATCAAACTAACAAAAACACTA
391 TAAATTAATAAAAAATAAATTTATCATTTCAATATTATCACACCATCAAACTAACAAAAACACTA
* * * * *
6517626 ATGATTGATTAACGGTTGGATCTATGTGTTCAGCAGAACATATTTTGTTAGTTTCTTTT
456 A-GATTGATT-A--GTTGGATCTATGTATCCAACAGAACATATTTTGTAAGTTTATTTT
* * * **
6517685 AAATTCCAACTAAACTCCATTTATATCTAAATTTAATTTTATTAATAAATTTTATTATGTTACTT
1 AAATTCCAACTAAACTCAATTTATATCAAAATTTAATTTTATCAATAAATTTTATTACATTACTT
* * * **
6517750 AATAAAGTAAA-TAATTTTTT-AT-ATAAAA-AAGATAAAATACTCCTACGCTTTTAAGTTTTAA
66 AATAAAATAAATTAATTTTTTGATAAAAAAATAAGATAAAATACTCCCACGCCCTTAAGTTTTAA
* ** * * *
6517811 TTGAAATTCCAATTAAATTCATTAATTTTCGAAATGAATACTATGCGTCTTCGTCTTAAAAATAT
131 TTAAAATTCCAAACAAATTCATTAATTTTCGAAATAAATACTATACATCTTCGTCTTAAAAATAT
* *
6517876 AAATACCATTAATAGAGATTATGAAAATAATAAAATGTCATATTTCTTTATTAATTTAAAAAATT
196 -AA-A-CATT-AT-GA-A-CA-GAAAATAATAAAATATCATATTTCTTTATTAATTTAAAAAATT
*
6517941 ATT-TAAAATAAAAAT-AAAAAAAAGAGCATTGGATCTGGTCTTCCTCAAGGGAGGGAGCATC-G
253 ATTATAAAATAAAAATGAAAAAAAA-A--A---G-T-T-G-CTTCC-CAA-GGAGGGAGCA-CAA
6518003 ATTGGTGCTCTCTATTTTTGTAATTTTTTTTAAAAAATATAATAATAGTAATTTTTAAATTAATA
305 ATTGGTGCTCTCTATTTTTGTAATTTTTTTT-AAAAATATAATAATAGTAATTTTTAAATTAATA
* * * **
6518068 AAAAATATATAATAGTAATTTTTAAATTAATAAAGAGTAAATTTATCATTTCAATATTATCACGT
369 AAAAATATATAATAATAATTTTTAAATTAATAAAAAATAAATTTATCATTTCAATATTATCACAC
* *
6518133 CATTAAACTAATAAAAACACT-A-ATT-A-T-GTTGGATCTATGTATCCAACA
434 CATCAAACTAACAAAAACACTAAGATTGATTAGTTGGATCTATGTATCCAACA
6518181 TGATATATTT
Statistics
Matches: 418, Mismatches: 56, Indels: 38
0.82 0.11 0.07
Matches are distributed among these distances:
510 84 0.20
511 7 0.02
512 3 0.01
513 12 0.03
514 69 0.17
515 1 0.00
516 9 0.02
517 7 0.02
518 43 0.10
519 1 0.00
520 18 0.04
522 1 0.00
523 1 0.00
524 2 0.00
525 2 0.00
526 8 0.02
527 2 0.00
528 40 0.10
529 108 0.26
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (510 bp):
AAATTCCAACTAAACTCAATTTATATCAAAATTTAATTTTATCAATAAATTTTATTACATTACTT
AATAAAATAAATTAATTTTTTGATAAAAAAATAAGATAAAATACTCCCACGCCCTTAAGTTTTAA
TTAAAATTCCAAACAAATTCATTAATTTTCGAAATAAATACTATACATCTTCGTCTTAAAAATAT
AAACATTATGAACAGAAAATAATAAAATATCATATTTCTTTATTAATTTAAAAAATTATTATAAA
ATAAAAATGAAAAAAAAAAGTTGCTTCCCAAGGAGGGAGCACAAATTGGTGCTCTCTATTTTTGT
AATTTTTTTTAAAAATATAATAATAGTAATTTTTAAATTAATAAAAAATATATAATAATAATTTT
TAAATTAATAAAAAATAAATTTATCATTTCAATATTATCACACCATCAAACTAACAAAAACACTA
AGATTGATTAGTTGGATCTATGTATCCAACAGAACATATTTTGTAAGTTTATTTT
Found at i:6519796 original size:15 final size:15
Alignment explanation
Indices: 6519776--6519834 Score: 91
Period size: 15 Copynumber: 3.9 Consensus size: 15
6519766 TTTTGCGTGA
6519776 AATGTAATTGTTGAG
1 AATGTAATTGTTGAG
*
6519791 AATGTAATTATTGAG
1 AATGTAATTGTTGAG
6519806 AATGTAATTGTTGAG
1 AATGTAATTGTTGAG
* *
6519821 AATATGATTGTTGA
1 AATGTAATTGTTGA
6519835 AAAAATATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.41
Consensus pattern (15 bp):
AATGTAATTGTTGAG
Found at i:6520148 original size:4 final size:4
Alignment explanation
Indices: 6520134--6520229 Score: 68
Period size: 4 Copynumber: 22.8 Consensus size: 4
6520124 AGTTTTAAAG
* * * *
6520134 AATT AAATT AATT AATTT AAATT ATTT TA-T AAAT AAAT AATTT AATT
1 AATT -AATT AATT AA-TT -AATT AATT AATT AATT AATT AA-TT AATT
* * *
6520181 AATT AATT AACT AATT AATT AATT AATTT AAAAT AATT AATA AATT AAT
1 AATT AATT AATT AATT AATT AATT AA-TT -AATT AATT AATT AATT AAT
6520230 ATTAATCACA
Statistics
Matches: 74, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
3 2 0.03
4 54 0.73
5 14 0.19
6 4 0.05
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:6521551 original size:31 final size:31
Alignment explanation
Indices: 6521514--6521575 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
6521504 AGTCTCTATA
*
6521514 TAATTCATAACATACTATTATTGCCCAAATT
1 TAATTCATAACATACTATCATTGCCCAAATT
* *
6521545 TAATTCATAATATACTATCATTGGCCAAATT
1 TAATTCATAACATACTATCATTGCCCAAATT
6521576 GATGTTTGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.39
Consensus pattern (31 bp):
TAATTCATAACATACTATCATTGCCCAAATT
Found at i:6524230 original size:20 final size:21
Alignment explanation
Indices: 6524202--6524240 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6524192 TATATGAAAA
6524202 AGCTAGTGG-TGATTTGGAGT
1 AGCTAGTGGATGATTTGGAGT
*
6524222 AGCTTGTGGATGATTTGGA
1 AGCTAGTGGATGATTTGGA
6524241 TGAACTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.05, G:0.38, T:0.36
Consensus pattern (21 bp):
AGCTAGTGGATGATTTGGAGT
Found at i:6526049 original size:15 final size:15
Alignment explanation
Indices: 6526031--6526071 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
6526021 GTAATTACAG
6526031 GTAATGTGATTGCAA
1 GTAATGTGATTGCAA
6526046 GTAATGTGATTGCAA
1 GTAATGTGATTGCAA
*
6526061 GCAATGTGATT
1 GTAATGTGATT
6526072 ACAGGGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.32, C:0.07, G:0.27, T:0.34
Consensus pattern (15 bp):
GTAATGTGATTGCAA
Found at i:6526257 original size:28 final size:27
Alignment explanation
Indices: 6526226--6526479 Score: 81
Period size: 28 Copynumber: 9.2 Consensus size: 27
6526216 ATAAGTTTAA
6526226 TATATTTATATTTTGTATTATTAATTTT
1 TATATTTATATTTT-TATTATTAATTTT
* *
6526254 TATA-ATATCATTTCTTA--AATATATTTT
1 TATATTTAT-ATTT-TTATTATTA-ATTTT
* *
6526281 TAATATCATATATTATTATT-TT-ATTTAT
1 T-ATAT-TTATATTTTTATTATTAATTT-T
* *
6526309 TAT-TATAATATTTTATATTTATT--TTTAA
1 TATAT-TTATATTTT-TA-TTATTAATTT-T
6526337 TATATTTATATTTTTATTATTAATTTT
1 TATATTTATATTTTTATTATTAATTTT
* *
6526364 TATATAATATCATTTCTTA--AATATATTTT
1 TATAT-TTAT-ATTT-TTATTATTA-ATTTT
* * *
6526393 TA-ATGTCATATTATTATT-TT-ATTTA
1 TATAT-TTATATTTTTATTATTAATTTT
*
6526418 T-TA-TTATAATTATTATATT-TTATTTTT
1 TATATTTAT-ATT-TT-TATTATTAATTTT
*
6526445 AATATATTTATATTTATATTATTAATTTTT
1 --TATATTTATATTTTTATTATTAA-TTTT
6526475 TATAT
1 TATAT
6526480 AATATCATAT
Statistics
Matches: 169, Mismatches: 25, Indels: 64
0.66 0.10 0.25
Matches are distributed among these distances:
23 3 0.02
24 3 0.02
25 7 0.04
26 24 0.14
27 31 0.18
28 57 0.34
29 24 0.14
30 16 0.09
31 4 0.02
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (27 bp):
TATATTTATATTTTTATTATTAATTTT
Found at i:6526322 original size:20 final size:20
Alignment explanation
Indices: 6526297--6526366 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
6526287 CATATATTAT
6526297 TATTTTATTTATTATTATAA
1 TATTTTATTTATTATTATAA
6526317 TATTTTATATTTATT-TT-TAA
1 TA-TTT-TATTTATTATTATAA
*
6526337 TATATTTATATTTTTATTATTAA
1 TAT-TTTAT-TTATTATTA-TAA
6526360 T-TTTTAT
1 TATTTTAT
6526367 ATAATATCAT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
19 4 0.10
20 13 0.31
21 12 0.29
22 9 0.21
23 4 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TATTTTATTTATTATTATAA
Found at i:6526327 original size:15 final size:15
Alignment explanation
Indices: 6526289--6526479 Score: 55
Period size: 15 Copynumber: 12.3 Consensus size: 15
6526279 TTTAATATCA
6526289 TATATTATT-ATTTT
1 TATATTATTAATTTT
*
6526303 ATTTATTATTATAATATTT
1 -TATATTA-T-TAAT-TTT
6526322 TATA-T-TT-ATTTT
1 TATATTATTAATTTT
*
6526334 TA-ATATATTTATATTT
1 TATAT-TATTAAT-TTT
6526350 T-TATTATTAATTTT
1 TATATTATTAATTTT
* *
6526364 TATATAATATCATTTCT
1 TATATTAT-TAATTT-T
*
6526381 TAAATATATT--TTTAAT
1 TATAT-TATTAATTT--T
6526397 GTCATATTATT-ATTTT
1 -T-ATATTATTAATTTT
* *
6526413 ATTTATTATTATAATTAT
1 -TATATTA-T-TAATTTT
6526431 TATATT-TT-ATTTT
1 TATATTATTAATTTT
* *
6526444 TA-ATATATTTATATT
1 TATAT-TATTAATTTT
6526459 TATATTATTAATTTTT
1 TATATTATTAA-TTTT
6526475 TATAT
1 TATAT
6526480 AATATCATAT
Statistics
Matches: 133, Mismatches: 17, Indels: 51
0.66 0.08 0.25
Matches are distributed among these distances:
11 1 0.01
12 7 0.05
13 10 0.08
14 10 0.08
15 40 0.30
16 26 0.20
17 19 0.14
18 17 0.13
19 3 0.02
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.64
Consensus pattern (15 bp):
TATATTATTAATTTT
Found at i:6526346 original size:31 final size:31
Alignment explanation
Indices: 6526271--6526369 Score: 80
Period size: 33 Copynumber: 3.2 Consensus size: 31
6526261 TCATTTCTTA
* **
6526271 AATATATTTTTAATATCATATA-TTATTATTT
1 AATATATTTATAATATTTTATATTTATT-TTT
* *
6526302 TATTTATTATTATAATATTTTATATTTATTTTT
1 AATATA-T-TTATAATATTTTATATTTATTTTT
*
6526335 AATATATTTAT-AT-TTTTATTATTAATTTTT
1 AATATATTTATAATATTTTA-TATTTATTTTT
6526365 -ATATA
1 AATATA
6526370 ATATCATTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
29 10 0.18
30 12 0.21
31 8 0.14
32 2 0.04
33 19 0.34
34 5 0.09
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (31 bp):
AATATATTTATAATATTTTATATTTATTTTT
Found at i:6526419 original size:110 final size:109
Alignment explanation
Indices: 6526221--6526554 Score: 514
Period size: 111 Copynumber: 3.0 Consensus size: 109
6526211 AAAATATAAG
6526221 TTTAATATATTTATATTTTGTATTATTAA-TTTT-TATAATATCATTTCTTAAATATATTTTTAA
1 TTTAATATATTTATATTTT-TATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAA
*
6526284 TATCATATATTATTATTTTATTTATTATTATAATATTTTATATTTATT
65 TGTC--ATATTATTATTTTATTTATTATTATAAT-TTTTATATTTATT
6526332 TTTAATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
1 TTTAATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
*
6526397 GTCATATTATTATTTTATTTATTATTATAATTATTATATTTTATT
66 GTCATATTATTATTTTATTTATTATTATAATTTTTATA-TTTATT
*
6526442 TTTAATATATTTATATTTATATTATTAATTTTTTATATAATATCATATT-TTAAATATATTTTTA
1 TTTAATATATTTATATTTTTATTATTAA-TTTTTATATAATATCAT-TTCTTAAATATATTTTTA
* *
6526506 ATGTCATATATTTTATTTTTATTTATTATTATAATTTTT-TATATATT
64 ATGTCATAT-TATTA-TTTTATTTATTATTATAATTTTTATATTTATT
6526553 TT
1 TT
6526555 ATTTCATTTC
Statistics
Matches: 210, Mismatches: 6, Indels: 14
0.91 0.03 0.06
Matches are distributed among these distances:
109 6 0.03
110 70 0.33
111 71 0.34
112 41 0.20
113 22 0.10
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (109 bp):
TTTAATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
GTCATATTATTATTTTATTTATTATTATAATTTTTATATTTATT
Found at i:6526500 original size:37 final size:36
Alignment explanation
Indices: 6526351--6526507 Score: 106
Period size: 37 Copynumber: 4.3 Consensus size: 36
6526341 TTTATATTTT
6526351 TATTATTAA-TTTTTATATAATATCATTTCTTAAATA
1 TATTATTAATTTTTTATATAATATCATTT-TTAAATA
* * ** * * * *
6526387 TATTTTTAATGTCATATTATTATTTTATTTATT-ATTA
1 TATTATTAATTTTTTA-TATAATATCATTT-TTAAATA
* * **
6526424 TAATTATTATATTTTATT-TTTAATAT-ATTTATATTTA
1 T-ATTATTA-ATTTT-TTATATAATATCATTTTTAAATA
6526461 TATTATTAATTTTTTATATAATATCATATTTTAAATA
1 TATTATTAATTTTTTATATAATATCAT-TTTTAAATA
*
6526498 TATTTTTAAT
1 TATTATTAAT
6526508 GTCATATATT
Statistics
Matches: 89, Mismatches: 23, Indels: 17
0.69 0.18 0.13
Matches are distributed among these distances:
34 2 0.02
35 12 0.13
36 18 0.20
37 30 0.34
38 23 0.26
39 3 0.03
40 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.61
Consensus pattern (36 bp):
TATTATTAATTTTTTATATAATATCATTTTTAAATA
Found at i:6526555 original size:110 final size:109
Alignment explanation
Indices: 6526221--6526554 Score: 505
Period size: 110 Copynumber: 3.0 Consensus size: 109
6526211 AAAATATAAG
*
6526221 TTTAATATATTTATATTTTGTATTATTAA-TTTT-TATAATATCATTTCTTAAATATATTTTTAA
1 TTTAATATATTTATA-TTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAA
*
6526284 TATCATATATTATTATTTTATTTATTATTATAATATTTTATATTTATT
65 TGTCATATATT-TTATTTTATTTATTATTATAAT-TTTT-TATTTATT
*
6526332 TTTAATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
1 TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
* *
6526397 GTCATAT-TATTATTTTATTTATTATTATAATTATTATATTTTATT
66 GTCATATATTTTATTTTATTTATTATTATAATT-TTTTA-TTTATT
6526442 TTTAATATATTTATATTTATATTATTAATTTTTTATATAATATCATATT-TTAAATATATTTTTA
1 TTTAATATATTTATATTTATATTATTAA-TTTTTATATAATATCAT-TTCTTAAATATATTTTTA
*
6526506 ATGTCATATATTTTATTTTTATTTATTATTATAATTTTTTATATATT
64 ATGTCATATATTTTA-TTTTATTTATTATTATAATTTTTTATTTATT
6526553 TT
1 TT
6526555 ATTTCATTTC
Statistics
Matches: 207, Mismatches: 8, Indels: 16
0.90 0.03 0.07
Matches are distributed among these distances:
109 3 0.01
110 69 0.33
111 68 0.33
112 47 0.23
113 20 0.10
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (109 bp):
TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
GTCATATATTTTATTTTATTTATTATTATAATTTTTTATTTATT
Found at i:6526582 original size:34 final size:35
Alignment explanation
Indices: 6526511--6526585 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 35
6526501 TTTTAATGTC
* *
6526511 ATATATTTTATTTTTATTTATTATTATAATTTTTT
1 ATATATTTTATTTTCATTTATTAATATAATTTTTT
*
6526546 ATATATTTTA-TTTCATTTCTTTAATAT-ATTTTTT
1 ATATATTTTATTTTCATTT-ATTAATATAATTTTTT
6526580 ATATAT
1 ATATAT
6526586 AAATATTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 20 0.56
35 16 0.44
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (35 bp):
ATATATTTTATTTTCATTTATTAATATAATTTTTT
Found at i:6526652 original size:13 final size:13
Alignment explanation
Indices: 6526634--6526699 Score: 68
Period size: 14 Copynumber: 5.2 Consensus size: 13
6526624 ATTGTTAATT
6526634 TTTTATATTTTTA
1 TTTTATATTTTTA
*
6526647 TTTTAT-TTTATA
1 TTTTATATTTTTA
*
6526659 -TTT-TATTCTTA
1 TTTTATATTTTTA
6526670 -TTTATATATTTTA
1 TTTTATAT-TTTTA
6526683 TTTTAATATTTTTA
1 TTTT-ATATTTTTA
6526697 TTT
1 TTT
6526700 AATTATAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
10 1 0.02
11 10 0.23
12 8 0.18
13 10 0.23
14 11 0.25
15 4 0.09
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTATATTTTTA
Found at i:6526655 original size:19 final size:18
Alignment explanation
Indices: 6526633--6526687 Score: 76
Period size: 18 Copynumber: 3.0 Consensus size: 18
6526623 AATTGTTAAT
6526633 TTTTTATATTTTTATTTTA
1 TTTTTATA-TTTTATTTTA
6526652 -TTTTATATTTTATTCTTA
1 TTTTTATATTTTATT-TTA
*
6526670 TTTATATATTTTATTTTA
1 TTTTTATATTTTATTTTA
6526688 ATATTTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
17 7 0.21
18 13 0.39
19 13 0.39
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTATATTTTATTTTA
Found at i:6526699 original size:19 final size:18
Alignment explanation
Indices: 6526634--6526687 Score: 76
Period size: 17 Copynumber: 3.0 Consensus size: 18
6526624 ATTGTTAATT
6526634 TTTTATATTTTTATTTTA
1 TTTTATATTTTTATTTTA
6526652 TTTTATA-TTTTATTCTTA
1 TTTTATATTTTTATT-TTA
6526670 -TTTATATATTTTATTTTA
1 TTTTATAT-TTTTATTTTA
6526688 ATATTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 13 0.39
18 13 0.39
19 7 0.21
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTATATTTTTATTTTA
Found at i:6526702 original size:13 final size:12
Alignment explanation
Indices: 6526289--6526700 Score: 86
Period size: 12 Copynumber: 32.2 Consensus size: 12
6526279 TTTAATATCA
*
6526289 TATATTATTATT
1 TATATTTTTATT
6526301 T-TATTTATTATT
1 TATATTT-TTATT
6526313 ATAATATTTTATATT
1 -T-ATATTTT-TATT
*
6526328 TATTTTTAATATATT
1 TATATTT--T-TATT
6526343 TATATTTTTA-T
1 TATATTTTTATT
6526354 TATTAATTTTTATAT
1 TA-T-ATTTTTAT-T
**
6526369 AATATCATTTCTTAAA
1 --TAT-ATTT-TTATT
6526385 TATATTTTTAATGT
1 TATATTTTT-AT-T
* *
6526399 CATATTATTATT
1 TATATTTTTATT
6526411 T-TATTTATTA-T
1 TATATTT-TTATT
6526422 TATAATTATTATATT
1 TAT-ATT-TT-TATT
*
6526437 T-TATTTTTA-A
1 TATATTTTTATT
*
6526447 TATATTTATATT
1 TATATTTTTATT
* *
6526459 TATATTATTAAT
1 TATATTTTTATT
* *
6526471 T-T-TTTATATAA
1 TATATTTTTAT-T
**
6526482 TATCATATTTTAAA
1 TAT-AT-TTTTATT
6526496 TATATTTTTAATGT
1 TATATTTTT-AT-T
*
6526510 CATATATTTTATT
1 TATAT-TTTTATT
*
6526523 TTTATTTATTA-T
1 TATATTT-TTATT
*
6526535 TATA-ATTT-TT
1 TATATTTTTATT
6526545 TATATATTTTATT
1 TATAT-TTTTATT
*
6526558 TCAT-TTCTTTA-A
1 T-ATATT-TTTATT
6526570 TATATTTTTTATAT
1 TATA-TTTTTAT-T
*
6526584 ATAAATATTTTATTT
1 -TATAT-TTTTA-TT
* *
6526599 TAATTTGTTTTACT
1 T-ATAT-TTTTATT
*
6526613 TATATTATATAATT
1 TATATT-T-TTATT
*
6526627 GT-TA-ATTT-TT
1 -TATATTTTTATT
6526637 TATATTTTTATT
1 TATATTTTTATT
6526649 T-TATTTTATATT
1 TATATTTT-TATT
*
6526661 T-TATTCTTATT
1 TATATTTTTATT
6526672 TATATATTTTATTT
1 TATAT-TTTTA-TT
6526686 TAATATTTTTATT
1 T-ATATTTTTATT
6526699 TA
1 TA
6526701 ATTATAATAT
Statistics
Matches: 295, Mismatches: 47, Indels: 116
0.64 0.10 0.25
Matches are distributed among these distances:
9 1 0.00
10 16 0.05
11 42 0.14
12 67 0.23
13 59 0.20
14 46 0.16
15 53 0.18
16 6 0.02
17 5 0.02
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (12 bp):
TATATTTTTATT
Found at i:6526706 original size:31 final size:32
Alignment explanation
Indices: 6526645--6526711 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 32
6526635 TTTATATTTT
*
6526645 TATTTTATTTTATATTTTATTCTTATTTAT-A
1 TATTTTATTTTATATTTTATTCTTAATTATAA
6526676 TATTTTATTTTAATATTTT-TAT-TTAATTATAA
1 TATTTTATTTT-ATATTTTAT-TCTTAATTATAA
6526708 TATT
1 TATT
6526712 AATAAAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
31 19 0.59
32 13 0.41
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (32 bp):
TATTTTATTTTATATTTTATTCTTAATTATAA
Found at i:6530295 original size:1 final size:1
Alignment explanation
Indices: 6530291--6530315 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
6530281 AAACATCACT
6530291 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
6530316 GGCCCCAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:6531210 original size:33 final size:33
Alignment explanation
Indices: 6531168--6531232 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
6531158 TGTGCAGATG
6531168 TGCATACGGTCTTTATTATTGCACTTTATAAGC
1 TGCATACGGTCTTTATTATTGCACTTTATAAGC
6531201 TGCATACGGTCTTTATTATTGCACTTTATAAG
1 TGCATACGGTCTTTATTATTGCACTTTATAAG
6531233 TTGCTATCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (33 bp):
TGCATACGGTCTTTATTATTGCACTTTATAAGC
Found at i:6540477 original size:22 final size:22
Alignment explanation
Indices: 6540410--6540478 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
6540400 TTTATAATTC
* *
6540410 TTTTTGTAACCAAAGTTTATA-
1 TTTTTGTAACTAAAGTTAATAT
* * **
6540431 TTTTTGTAAGTAAACTTAACCT
1 TTTTTGTAACTAAAGTTAATAT
*
6540453 TTTTTGTAACTAAAGTTGATAT
1 TTTTTGTAACTAAAGTTAATAT
6540475 TTTT
1 TTTT
6540479 ATAATTGGTT
Statistics
Matches: 36, Mismatches: 11, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
21 15 0.42
22 21 0.58
ACGTcount: A:0.30, C:0.09, G:0.10, T:0.51
Consensus pattern (22 bp):
TTTTTGTAACTAAAGTTAATAT
Found at i:6540661 original size:37 final size:38
Alignment explanation
Indices: 6540619--6540698 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
6540609 AAATAACAGG
* *
6540619 TTTCATATTATAAGTAAAA-TTGCATTCAACTACAATA
1 TTTCATATTATAAGCAAAACTTACATTCAACTACAATA
* *
6540656 TTTCATATTATAAGCAAAACTTACATTCAACTATACTA
1 TTTCATATTATAAGCAAAACTTACATTCAACTACAATA
6540694 TTTCA
1 TTTCA
6540699 AGATTTTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
37 18 0.47
38 20 0.53
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.39
Consensus pattern (38 bp):
TTTCATATTATAAGCAAAACTTACATTCAACTACAATA
Found at i:6540843 original size:26 final size:26
Alignment explanation
Indices: 6540812--6540862 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
6540802 TTTTATTTAA
* *
6540812 TATTTTATTCAATTTAGTTTTTATAT
1 TATTTTATTCAATTTAATTCTTATAT
6540838 TATTTTATTCAATTTAATTCTTATA
1 TATTTTATTCAATTTAATTCTTATA
6540863 ATGTGACACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (26 bp):
TATTTTATTCAATTTAATTCTTATAT
Found at i:6543810 original size:137 final size:142
Alignment explanation
Indices: 6543526--6544394 Score: 1049
Period size: 147 Copynumber: 6.0 Consensus size: 142
6543516 AACTATATGG
* *
6543526 ACACAGTAGACACTTTGCAACCTCGTATTGCCTGTTCATTCTATGCCAAATGTCTAGCTGTGTCA
1 ACACAGTAAACACTTTGCAACCTC---TT-CC-GTACATTCTATGCCAAATGTCTAGCTGTGTCA
* * *
6543591 TTATTATACTATTTCTGCAATGATTTCTGTGCAGTGATTATCCTGTTTTCTCAAACTGTTTGCAG
61 TTATTATAATATTTCTGCAATGATTTCAGTGCAGTGATTGTCCTGTTTTCTCAAACTGTTTGCAG
6543656 AAATATTGAATATTGAA
126 AAATATTGAATATTGAA
*
6543673 ACACAGTAAACACTTTGCAA-C-C-T-C-TACATTCTCTGCCAAATGTCTAGCTGTGTCATTATT
1 ACACAGTAAACACTTTGCAACCTCTTCCGTACATTCTATGCCAAATGTCTAGCTGTGTCATTATT
* *
6543733 ATACTATTTCGGCAATGATTTCAGTGCAGTGATTGTCCTGTTTTCTCAAACTGTTTGCAGAAATA
66 ATAATATTTCTGCAATGATTTCAGTGCAGTGATTGTCCTGTTTTCTCAAACTGTTTGCAGAAATA
*
6543798 TTGAATAGTGAA
131 TTGAATATTGAA
6543810 ACACAGTAAACACTTTGCAACCTCTTATTGCCTGTACATTCTATTG-CAAATGTCTAGCTGTGTC
1 ACACAGTAAACACTTTGCAACCTC---TT-CC-GTACATTCTA-TGCCAAATGTCTAGCTGTGTC
6543874 ATTATTATAATATTTCTGCAATGATTTCAGTGCAGTGATTGTCCTG-TTTCTCAAACTGTTTGCA
60 ATTATTATAATATTTCTGCAATGATTTCAGTGCAGTGATTGTCCTGTTTTCTCAAACTGTTTGCA
*
6543938 GAAATATTGAATAGTGAA
125 GAAATATTGAATATTGAA
*
6543956 ACACAGTAAACACTTTGCAACCCTTATTGCCTGTACATTCTATTG-CAAATGTCTAGCTGTGTCA
1 ACACAGTAAACACTTTGCAA-CC-TCTT-CC-GTACATTCTA-TGCCAAATGTCTAGCTGTGTCA
* *
6544020 TTATTATAATATTTCTGCAATGATTT--GTGCAGTGCTTGTTTCTG-TTTCTCAAAACTGTTTGC
61 TTATTATAATATTTCTGCAATGATTTCAGTGCAGTGATTG-TCCTGTTTTCTC-AAACTGTTTGC
*
6544082 AGAAATATTGTATATTGAA
124 AGAAATATTGAATATTGAA
6544101 ACACAGTAAACACTTTGCAACCTCTTATTGCCTGTACATTCTATGCCAAATGTCTAGCTGTGTCA
1 ACACAGTAAACACTTTGCAACCTC---TT-CC-GTACATTCTATGCCAAATGTCTAGCTGTGTCA
*******************
6544166 TTATTATAATATTTCTGCAATGATTTCAGTGCAGTNNNNNNNNNNNNNNNNNNNACTGTTTGCAG
61 TTATTATAATATTTCTGCAATGATTTCAGTGCAGTGATTGTCCTGTTTTCTCAAACTGTTTGCAG
*
6544231 AAATATTGTATATTGAA
126 AAATATTGAATATTGAA
* * *
6544248 ACACAGTAAACACTTTGCAACCTCTTGTTGCCTGTACATTCTATTCCAAACGTCTAGCTATGTCA
1 ACACAGTAAACACTTTGCAACCTC---TT-CC-GTACATTCTATGCCAAATGTCTAGCTGTGTCA
* * *
6544313 TCATTATACTATTTCTGCAATGATTTCAGTGCAGTCATTGTCCTGTTTTCTCAAACTGTTTGCAG
61 TTATTATAATATTTCTGCAATGATTTCAGTGCAGTGATTGTCCTGTTTTCTCAAACTGTTTGCAG
6544378 AAATATTGAATATTGAA
126 AAATATTGAATATTGAA
6544395 TGTATATTCA
Statistics
Matches: 640, Mismatches: 60, Indels: 44
0.86 0.08 0.06
Matches are distributed among these distances:
137 127 0.20
138 1 0.00
139 2 0.00
141 1 0.00
143 13 0.02
144 12 0.02
145 116 0.18
146 118 0.18
147 240 0.38
148 10 0.02
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.37
Consensus pattern (142 bp):
ACACAGTAAACACTTTGCAACCTCTTCCGTACATTCTATGCCAAATGTCTAGCTGTGTCATTATT
ATAATATTTCTGCAATGATTTCAGTGCAGTGATTGTCCTGTTTTCTCAAACTGTTTGCAGAAATA
TTGAATATTGAA
Found at i:6544357 original size:438 final size:431
Alignment explanation
Indices: 6543526--6544394 Score: 1219
Period size: 438 Copynumber: 2.0 Consensus size: 431
6543516 AACTATATGG
* *
6543526 ACACAGTAGACACTTTGCAACCTCGTATTGCCTGTTCATTCTATGCCAAATGTCTAGCTGTGTCA
1 ACACAGTAAACACTTTGCAACCTCGTATTGCCTGTACATTCTATGCCAAATGTCTAGCTGTGTCA
*
6543591 TTATTATACTATTTCTGCAATGATTTCTGTGCAGTGATTATCCTGTTTTCTCAAACTGTTTGCAG
66 TTATTATAATATTTCTGCAATGATTTCTGTGCAGTGATTATCCTGTTTTCTCAAACTGTTTGCAG
*
6543656 AAATATTGAATATTGAAACACAGTAAACACTTTGCAACCTCTACATTCTCTGCCAAATGTCTAGC
131 AAATATTGAATATTGAAACACAGTAAACACTTTGCAACCTCTACATTCTATGCCAAATGTCTAGC
*
6543721 TGTGTCATTATTATACTATTTCGGCAATGATTTCAGTGCAGTGATTGTCCTGTTTTCTCAAACTG
196 TGTGTCATTATTATAATATTTCGGCAATGATTTCAGTGCAGTGATTGTCCTGTTTTCTCAAACTG
6543786 TTTGCAGAAATATTGAATAGTGAAACACAGTAAACACTTTGCAACCTCTTATTGCCTGTACATTC
261 TTTGCAGAAATATTGAATAGTGAAACACAGTAAACACTTTGCAACCTCTTATTGCCTGTACATTC
* * * * *
6543851 TATTGCAAATGTCTAGCTGTGTCATTATTATAATATTTCTGCAATGATTTCAGTGCAGTGATTGT
326 TATTCCAAACGTCTAGCTATGTCATCATTATAATATTTCTGCAATGATTTCAGTGCAGTCATTGT
6543916 CCTG-TTTCTCAAACTGTTTGCAGAAATATTGAATAGTGAA
391 CCTGTTTTCTCAAACTGTTTGCAGAAATATTGAATAGTGAA
*
6543956 ACACAGTAAACACTTTGCAACC-CTTATTGCCTGTACATTCTATTG-CAAATGTCTAGCTGTGTC
1 ACACAGTAAACACTTTGCAACCTCGTATTGCCTGTACATTCTA-TGCCAAATGTCTAGCTGTGTC
* * *
6544019 ATTATTATAATATTTCTGCAATGA-TT-TGTGCAGTGCTTGTTTCTG-TTTCTCAAAACTGTTTG
65 ATTATTATAATATTTCTGCAATGATTTCTGTGCAGTGATT-ATCCTGTTTTCTC-AAACTGTTTG
*
6544081 CAGAAATATTGTATATTGAAACACAGTAAACACTTTGCAACCTCTTATTGCCTGTACATTCTATG
128 CAGAAATATTGAATATTGAAACACAGTAAACACTTTGCAA-C-C----T--C--TACATTCTATG
* **********
6544146 CCAAATGTCTAGCTGTGTCATTATTATAATATTTCTGCAATGATTTCAGTGCAGTNNNNNNNNNN
183 CCAAATGTCTAGCTGTGTCATTATTATAATATTTCGGCAATGATTTCAGTGCAGTGATTGTCCTG
********* * * *
6544211 NNNNNNNNNACTGTTTGCAGAAATATTGTATATTGAAACACAGTAAACACTTTGCAACCTCTTGT
248 TTTTCTCAAACTGTTTGCAGAAATATTGAATAGTGAAACACAGTAAACACTTTGCAACCTCTTAT
*
6544276 TGCCTGTACATTCTATTCCAAACGTCTAGCTATGTCATCATTATACTATTTCTGCAATGATTTCA
313 TGCCTGTACATTCTATTCCAAACGTCTAGCTATGTCATCATTATAATATTTCTGCAATGATTTCA
*
6544341 GTGCAGTCATTGTCCTGTTTTCTCAAACTGTTTGCAGAAATATTGAATATTGAA
378 GTGCAGTCATTGTCCTGTTTTCTCAAACTGTTTGCAGAAATATTGAATAGTGAA
6544395 TGTATATTCA
Statistics
Matches: 385, Mismatches: 40, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
427 17 0.04
428 55 0.14
429 60 0.16
430 24 0.06
434 1 0.00
436 1 0.00
438 192 0.50
439 35 0.09
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.37
Consensus pattern (431 bp):
ACACAGTAAACACTTTGCAACCTCGTATTGCCTGTACATTCTATGCCAAATGTCTAGCTGTGTCA
TTATTATAATATTTCTGCAATGATTTCTGTGCAGTGATTATCCTGTTTTCTCAAACTGTTTGCAG
AAATATTGAATATTGAAACACAGTAAACACTTTGCAACCTCTACATTCTATGCCAAATGTCTAGC
TGTGTCATTATTATAATATTTCGGCAATGATTTCAGTGCAGTGATTGTCCTGTTTTCTCAAACTG
TTTGCAGAAATATTGAATAGTGAAACACAGTAAACACTTTGCAACCTCTTATTGCCTGTACATTC
TATTCCAAACGTCTAGCTATGTCATCATTATAATATTTCTGCAATGATTTCAGTGCAGTCATTGT
CCTGTTTTCTCAAACTGTTTGCAGAAATATTGAATAGTGAA
Found at i:6566613 original size:3 final size:3
Alignment explanation
Indices: 6566605--6566632 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6566595 GAACGTGGAA
6566605 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
6566633 TTATTACTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:6576676 original size:22 final size:23
Alignment explanation
Indices: 6576609--6576678 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 23
6576599 TCACTTTGTA
*
6576609 AAAAAAATCATGA-ATTTTACATT
1 AAAAAAATCATCATATTTTACA-T
*
6576632 AAAAAAAAT-ATCATAATTT-CAT
1 -AAAAAAATCATCATATTTTACAT
*
6576654 AAAAGAATCAT-ATATTTTACAT
1 AAAAAAATCATCATATTTTACAT
6576676 AAA
1 AAA
6576679 TAATGTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 13 0.33
22 9 0.23
23 5 0.13
24 12 0.31
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.33
Consensus pattern (23 bp):
AAAAAAATCATCATATTTTACAT
Found at i:6583352 original size:20 final size:20
Alignment explanation
Indices: 6583324--6583374 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
6583314 ATTTTTAAAT
* * *
6583324 TATAAATATAATTAACTTTA
1 TATATATATAACTAACATTA
*
6583344 TATATATATGACTAACATTA
1 TATATATATAACTAACATTA
6583364 T-TATAATATAA
1 TATAT-ATATAA
6583375 ATCTAACCAC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (20 bp):
TATATATATAACTAACATTA
Found at i:6585708 original size:18 final size:18
Alignment explanation
Indices: 6585687--6585721 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6585677 AAATAATATT
6585687 TTAATTAATAATAATTAG
1 TTAATTAATAATAATTAG
* *
6585705 TTAATTATTAATTATTA
1 TTAATTAATAATAATTA
6585722 AAGTATATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTAATTAATAATAATTAG
Found at i:6586378 original size:17 final size:18
Alignment explanation
Indices: 6586356--6586391 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
6586346 TATTCAATAA
6586356 AAAATATT-TTTTAAAAT
1 AAAATATTATTTTAAAAT
6586373 AAAATATTCATTTTAAAAT
1 AAAATATT-ATTTTAAAAT
6586392 TAACAAGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
19 9 0.53
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATATTATTTTAAAAT
Found at i:6587737 original size:2 final size:2
Alignment explanation
Indices: 6587730--6587756 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6587720 TATTTTATTT
6587730 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6587757 GTAATCATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6588382 original size:18 final size:18
Alignment explanation
Indices: 6588361--6588412 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
6588351 TAATTTAATA
6588361 TTTGATTAAAAAAATAAG
1 TTTGATTAAAAAAATAAG
*
6588379 TTTGAATAACAAAAGAATAAG
1 TTTG-ATTA-AAAA-AATAAG
6588400 -TT-ATTAAAAAAAT
1 TTTGATTAAAAAAAT
6588413 CAAAATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 3 0.10
17 4 0.14
18 7 0.24
19 3 0.10
20 6 0.21
21 6 0.21
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.31
Consensus pattern (18 bp):
TTTGATTAAAAAAATAAG
Found at i:6596286 original size:12 final size:12
Alignment explanation
Indices: 6596264--6596300 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
6596254 AATAATAATA
6596264 ATAATAA-AAGG
1 ATAATAACAAGG
6596275 ATAATAACAAGG
1 ATAATAACAAGG
6596287 ATAATAACAAGG
1 ATAATAACAAGG
6596299 AT
1 AT
6596301 TCAACTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.28
12 18 0.72
ACGTcount: A:0.59, C:0.05, G:0.16, T:0.19
Consensus pattern (12 bp):
ATAATAACAAGG
Found at i:6601211 original size:89 final size:89
Alignment explanation
Indices: 6601055--6601219 Score: 240
Period size: 89 Copynumber: 1.9 Consensus size: 89
6601045 AGCATTTAAT
* *
6601055 AACTGCCACTGGTTGTTTACACTTTTGTTACTTTATTTGGCAGCGTGGTGGACTGTCTGACCCAA
1 AACTGCCACTGGTTGTTTACACTTTGGTTACTTTATTTGGCAGCGTGGTGCACTGTCTGACCCAA
6601120 TTTCGTTTTACTTATAAACTTTGG
66 TTTCGTTTTACTTATAAACTTTGG
* * * * * * *
6601144 AACTGCCACTGGTTGTTTACGCTTTGGTTACTTTGTTTGGCTGTGTGGTTCATTGTCTGACCTAA
1 AACTGCCACTGGTTGTTTACACTTTGGTTACTTTATTTGGCAGCGTGGTGCACTGTCTGACCCAA
*
6601209 TTTTGTTTTAC
66 TTTCGTTTTAC
6601220 GTACATAAGT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
89 66 1.00
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.44
Consensus pattern (89 bp):
AACTGCCACTGGTTGTTTACACTTTGGTTACTTTATTTGGCAGCGTGGTGCACTGTCTGACCCAA
TTTCGTTTTACTTATAAACTTTGG
Found at i:6604168 original size:2 final size:2
Alignment explanation
Indices: 6604161--6604200 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
6604151 CTTGCAATTA
* *
6604161 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6604201 TGTCCAAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6607962 original size:23 final size:24
Alignment explanation
Indices: 6607905--6607969 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 24
6607895 TTGTTAGAAG
*
6607905 TTATTGAAATATTGAATGCAAAAA
1 TTATTGAAATATTAAATGCAAAAA
* *
6607929 TTGTTGTAATATTAAATGC-AAAA
1 TTATTGAAATATTAAATGCAAAAA
*
6607952 TTATTGAAATATTTAATG
1 TTATTGAAATATTAAATG
6607970 GATATATAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
23 19 0.54
24 16 0.46
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (24 bp):
TTATTGAAATATTAAATGCAAAAA
Found at i:6610187 original size:164 final size:164
Alignment explanation
Indices: 6609916--6610404 Score: 766
Period size: 164 Copynumber: 3.0 Consensus size: 164
6609906 AAATGTAAAA
* * *
6609916 TAGTAGGTATTTAGGGTTTA-CTTTTCCCCCATCACTTATTACTA-CTAATGGTTTGTTAAAGTC
1 TAGTAGGTGTTTAGGGTTTACCTTTT-GCCCATCACTTATTACTATC-AATGGTTTGTTAAAATC
*
6609979 CTCAATAACAGTATTAACCAAGTTCAAAAACCAAGACCATGAGTCACCATTCTCTAGCTCCACCA
64 CTCAATAACAATATTAACCAAGTTCAAAAACCAAGACCATGAGTCACCATTCTCTAGCTCCACCA
6610044 TGGCAACAGCAATAGGATACAAACCATAATTCCTAT
129 TGGCAACAGCAATAGGATACAAACCATAATTCCTAT
*
6610080 TAGTAGGTGTTTAGGGTTTACCTTTTGCCTATCACTTATTACTATCAATGGTTTGTTAAAATCCT
1 TAGTAGGTGTTTAGGGTTTACCTTTTGCCCATCACTTATTACTATCAATGGTTTGTTAAAATCCT
* *
6610145 CAATAGCAATATTAACCAAGTTCAAAAACCAAGATCATGAGTCACCATTCTCTAGCTCCACCATG
66 CAATAACAATATTAACCAAGTTCAAAAACCAAGACCATGAGTCACCATTCTCTAGCTCCACCATG
*
6610210 GCAACAGCAATAGGATACAAACCATAATTCTTAT
131 GCAACAGCAATAGGATACAAACCATAATTCCTAT
* *
6610244 CAGTAGGTGTTTAGGGTTTACCTTTTGCCCATCACTTATTACTATCAATGGTTTGTTAAAATCCC
1 TAGTAGGTGTTTAGGGTTTACCTTTTGCCCATCACTTATTACTATCAATGGTTTGTTAAAATCCT
* * * * **
6610309 CAATAACAATATTAACCAAGTTCAAAAACCAAGACCATGAGTCACCATTCCCCAACTTCACCACA
66 CAATAACAATATTAACCAAGTTCAAAAACCAAGACCATGAGTCACCATTCTCTAGCTCCACCATG
* ** *
6610374 GCAACAACAATAAAATACAAACCACAATTCC
131 GCAACAGCAATAGGATACAAACCATAATTCC
6610405 CATAAATGGC
Statistics
Matches: 299, Mismatches: 24, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
164 293 0.98
165 6 0.02
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (164 bp):
TAGTAGGTGTTTAGGGTTTACCTTTTGCCCATCACTTATTACTATCAATGGTTTGTTAAAATCCT
CAATAACAATATTAACCAAGTTCAAAAACCAAGACCATGAGTCACCATTCTCTAGCTCCACCATG
GCAACAGCAATAGGATACAAACCATAATTCCTAT
Found at i:6618235 original size:2 final size:2
Alignment explanation
Indices: 6618228--6618258 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6618218 AAAAATTATT
6618228 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6618259 CAGAATTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6620791 original size:9 final size:9
Alignment explanation
Indices: 6620779--6620803 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6620769 TTAGCGGCTC
6620779 ACCAAACCA
1 ACCAAACCA
6620788 ACCAAACCA
1 ACCAAACCA
6620797 ACCAAAC
1 ACCAAAC
6620804 TTTTACTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.44, G:0.00, T:0.00
Consensus pattern (9 bp):
ACCAAACCA
Found at i:6621055 original size:22 final size:20
Alignment explanation
Indices: 6621030--6621070 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
6621020 ATTGGCCATC
*
6621030 TTTATAGATGTGATTTATTTGT
1 TTTATAAATGT-ATTT-TTTGT
6621052 TTTATAAATGTATTTTTTG
1 TTTATAAATGTATTTTTTG
6621071 ATTATCCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 10 0.56
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (20 bp):
TTTATAAATGTATTTTTTGT
Found at i:6629360 original size:2 final size:2
Alignment explanation
Indices: 6629353--6629380 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6629343 CCCTCTTGCA
6629353 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6629381 GTATGTTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6633839 original size:33 final size:33
Alignment explanation
Indices: 6633780--6633843 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
6633770 TTAGTTCACT
* *
6633780 TAAAGGAATAGAATGAGAATAGAATAACTATTC
1 TAAAAGAATAGAATGAGAATAAAATAACTATTC
6633813 TAAAAGAATAGAATAGAGAA-AAAATAACTAT
1 TAAAAGAATAGAAT-GAGAATAAAATAACTAT
6633844 AATGCAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.22
Consensus pattern (33 bp):
TAAAAGAATAGAATGAGAATAAAATAACTATTC
Found at i:6634185 original size:23 final size:22
Alignment explanation
Indices: 6634142--6634185 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
6634132 AAAAACAAAT
* **
6634142 ATATTTTTATTATAATTTAATA
1 ATATTTTTATTAGAAGATAATA
6634164 ATATTTTGTATTAGAAGATAAT
1 ATATTTT-TATTAGAAGATAAT
6634186 TAAACCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
ATATTTTTATTAGAAGATAATA
Found at i:6635625 original size:16 final size:17
Alignment explanation
Indices: 6635595--6635628 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6635585 TTCTTTTTAG
*
6635595 TTATATTATTTAACTAT
1 TTATATTATTAAACTAT
6635612 TTATA-TATTAAACTAT
1 TTATATTATTAAACTAT
6635628 T
1 T
6635629 ATGTGAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATATTATTAAACTAT
Found at i:6638865 original size:2 final size:2
Alignment explanation
Indices: 6638858--6638892 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6638848 CTTAATTAGA
6638858 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6638893 ATGAAGATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6651460 original size:24 final size:22
Alignment explanation
Indices: 6651433--6651507 Score: 78
Period size: 26 Copynumber: 3.1 Consensus size: 22
6651423 ATTTTAATTA
6651433 TTAAATTATAAATAAAATTAATAT
1 TTAAATTATAAAT--AATTAATAT
*
6651457 TTAAATTATAAATTATTAATAT
1 TTAAATTATAAATAATTAATAT
*
6651479 TTAAATCAATTATAAATTATTAATAT
1 TT--A--AATTATAAATAATTAATAT
6651505 TTA
1 TTA
6651508 GAAAATAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
22 10 0.22
24 15 0.33
26 21 0.46
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (22 bp):
TTAAATTATAAATAATTAATAT
Found at i:6651469 original size:31 final size:32
Alignment explanation
Indices: 6651418--6651477 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
6651408 TATTAATATT
*
6651418 TTAAAATTTTAATTATTAAATTATAAATAAAA
1 TTAAAATTTAAATTATTAAATTATAAATAAAA
* *
6651450 TTAATATTTAAATTA-TAAATTATTAATA
1 TTAAAATTTAAATTATTAAATTATAAATA
6651478 TTTAAATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 12 0.48
32 13 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
TTAAAATTTAAATTATTAAATTATAAATAAAA
Found at i:6651515 original size:22 final size:21
Alignment explanation
Indices: 6651408--6651516 Score: 73
Period size: 26 Copynumber: 5.0 Consensus size: 21
6651398 TAATTAAAAG
* *
6651408 TATTAATATTTTAAAATTTTAAT
1 TATTAATA-TTTAAAA-ATAAAT
*
6651431 TATTAA-A-TTATAAATAAA-
1 TATTAATATTTAAAAATAAAT
*
6651449 -ATTAATATTTAAATTATAAAT
1 TATTAATATTTAAA-AATAAAT
6651470 TATTAATATTTAAATCAATTATAAAT
1 TATTAATATTT-AA--AA--ATAAAT
6651496 TATTAATATTTAGAAAATAAA
1 TATTAATATTTA-AAAATAAA
6651517 ATAAAATAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 23
0.70 0.06 0.23
Matches are distributed among these distances:
17 5 0.07
18 1 0.01
19 7 0.10
20 10 0.14
22 16 0.23
23 8 0.12
24 2 0.03
25 2 0.03
26 18 0.26
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (21 bp):
TATTAATATTTAAAAATAAAT
Found at i:6651581 original size:105 final size:106
Alignment explanation
Indices: 6651431--6651633 Score: 247
Period size: 105 Copynumber: 1.9 Consensus size: 106
6651421 AAATTTTAAT
* *
6651431 TATTAAATTATAAATAAAATTAATATTTAAATTATAAATTATTAATATTTAAATCAAT-TATAA-
1 TATTAAATTATAAATAAAATTAATATTT--ATTATAAATTATTAATAATTAAAT-AATAAATAAC
* *
6651494 ATTATTAATATTTAGAAAATAAAATAAAATAAATAATCATAATAA
63 A-TATTAATATTTAAAAAATAAAACAAAATAAATAATCATAATAA
* *
6651539 TATTAAAATTATAAATGAAATATTAATA-TT-TTAT-AATT-TTAATAATTATATTATAAATAAC
1 TATT-AAATTATAAAT-AAA-ATTAATATTTATTATAAATTATTAATAATTAAATAATAAATAAC
6651600 ATATTAATATTTAAAAAATAAAACAAAATAAATA
63 ATATTAATATTTAAAAAATAAAACAAAATAAATA
6651634 TTTTTATCTT
Statistics
Matches: 84, Mismatches: 6, Indels: 13
0.82 0.06 0.13
Matches are distributed among these distances:
104 2 0.02
105 46 0.55
106 5 0.06
107 4 0.05
108 4 0.05
109 11 0.13
110 5 0.06
111 7 0.08
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (106 bp):
TATTAAATTATAAATAAAATTAATATTTATTATAAATTATTAATAATTAAATAATAAATAACATA
TTAATATTTAAAAAATAAAACAAAATAAATAATCATAATAA
Found at i:6651609 original size:20 final size:19
Alignment explanation
Indices: 6651431--6651619 Score: 68
Period size: 18 Copynumber: 10.1 Consensus size: 19
6651421 AAATTTTAAT
6651431 TATTAA-ATTATAAATAAA
1 TATTAATATTATAAATAAA
6651449 -ATTAATATT-TAAATTATAAA
1 TATTAATATTAT-AA--ATAAA
*
6651469 TTATTAATATT-TAAATCAA
1 -TATTAATATTATAAATAAA
*
6651488 T-TATAA-ATTATTAAT--A
1 TAT-TAATATTATAAATAAA
* *
6651504 T-TTAGAAAATA-AAATAAA
1 TATTA-ATATTATAAATAAA
* *
6651522 -ATAAATAATCAT-AAT-AA
1 TATTAAT-ATTATAAATAAA
*
6651539 TATTAAAATTATAAATGAAA
1 TATTAATATTATAAAT-AAA
* *
6651559 TATTAATATTTTATAATTTTAA
1 TATTAATA--TTATAA-ATAAA
6651581 TAATT-ATATTATAAATAACA
1 T-ATTAATATTATAAATAA-A
6651601 TATTAATATT-TAAA-AAA
1 TATTAATATTATAAATAAA
6651618 TA
1 TA
6651620 AAACAAAATA
Statistics
Matches: 130, Mismatches: 16, Indels: 51
0.66 0.08 0.26
Matches are distributed among these distances:
15 2 0.02
16 7 0.05
17 23 0.18
18 30 0.23
19 13 0.10
20 27 0.21
21 2 0.02
22 22 0.17
23 4 0.03
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.42
Consensus pattern (19 bp):
TATTAATATTATAAATAAA
Found at i:6658360 original size:11 final size:11
Alignment explanation
Indices: 6658341--6658370 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6658331 ACACATAACG
*
6658341 ATAACAAAAAA
1 ATAATAAAAAA
6658352 ATAATAAAAAA
1 ATAATAAAAAA
6658363 ATAATAAA
1 ATAATAAA
6658371 TGTATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (11 bp):
ATAATAAAAAA
Found at i:6658473 original size:23 final size:23
Alignment explanation
Indices: 6658443--6658487 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6658433 TTCTATGTGC
* *
6658443 ATCTTCTTCTTTCATGTATAAAT
1 ATCTTCTTATTTCATGCATAAAT
*
6658466 ATCTTCTTATTTTATGCATAAA
1 ATCTTCTTATTTCATGCATAAA
6658488 ACTCCTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.51
Consensus pattern (23 bp):
ATCTTCTTATTTCATGCATAAAT
Found at i:6678781 original size:2 final size:2
Alignment explanation
Indices: 6678774--6678799 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6678764 TAATATGCGC
6678774 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6678800 TAGTTTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6686698 original size:12 final size:12
Alignment explanation
Indices: 6686665--6686698 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6686655 CTCGGATTGA
6686665 CACACACACATG
1 CACACACACATG
*
6686677 CACGCACACATG
1 CACACACACATG
*
6686689 CACACGCACA
1 CACACACACA
6686699 ACATACACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.44, G:0.12, T:0.06
Consensus pattern (12 bp):
CACACACACATG
Found at i:6692204 original size:216 final size:212
Alignment explanation
Indices: 6691791--6692207 Score: 490
Period size: 216 Copynumber: 1.9 Consensus size: 212
6691781 TATTTGATGT
* * *
6691791 GAAAAAGCACAAAGTGAAATGCCTGTTGACACAAAGTATATATCAATTCTTACATGTGAATATTA
1 GAAAAAGCACAAAGTGAAATGCCAGTTGACACAAAGTATATATCAACTCTTACAAGTGAATATTA
* * *
6691856 AACACACATCAATTGGTCCATATATCAGTGCTAATGGTTGAGACAACCAGATAAAAAGGACAACT
66 AACACACATCAATAGGTCCATATATAAGTGCTAATGGTAGAGACAACCAGATAAAAAGGAC-ACT
* *
6691921 TCAAAGCAAACAGTGAATGGAACTTTCCAATCATCATTCTGAAAGGAAGAACATAAAACCCTTTT
130 TCAAAGCAAACAATGAATGGAACTTTCCAATCATCATTCTGAAAGGAAGAACATAAAACCATTTT
6691986 CCTTTCACAGGGTCGGGA
195 CCTTTCACAGGGTCGGGA
6692004 GAAAAAGCACAAAGTGAAATGCCAGTTGACACAACAAGTGAAGTATATATCAACTC-TA-AAGTG
1 GAAAAAGCACAAAGTGAAATGCCAGTTG--AC-AC-A---AAGTATATATCAACTCTTACAAGTG
* * * *
6692067 AATATT-AAC-CACATCAATAGGTGCATGTATAAGTGCTAGTGGTAGAGACAGCCAGATAAAAAG
59 AATATTAAACACACATCAATAGGTCCATATATAAGTGCTAATGGTAGAGACAACCAGATAAAAAG
* * * * * **
6692130 GTGC-CTTCAAAAGC-AACAATTAATAGG-A-TTCTCTAATCCTCCTTCTGAAAGGAAGAATGTA
124 G-ACACTTC-AAAGCAAACAATGAAT-GGAACTT-TCCAATCATCATTCTGAAAGGAAGAACATA
6692191 AAATCCATTTTCCTTTC
185 AAA-CCATTTTCCTTTC
6692208 TGCAGGGTAA
Statistics
Matches: 173, Mismatches: 19, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
213 27 0.16
214 2 0.01
215 43 0.25
216 69 0.40
217 5 0.03
218 10 0.06
219 2 0.01
220 15 0.09
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (212 bp):
GAAAAAGCACAAAGTGAAATGCCAGTTGACACAAAGTATATATCAACTCTTACAAGTGAATATTA
AACACACATCAATAGGTCCATATATAAGTGCTAATGGTAGAGACAACCAGATAAAAAGGACACTT
CAAAGCAAACAATGAATGGAACTTTCCAATCATCATTCTGAAAGGAAGAACATAAAACCATTTTC
CTTTCACAGGGTCGGGA
Found at i:6693498 original size:175 final size:172
Alignment explanation
Indices: 6693073--6693588 Score: 788
Period size: 172 Copynumber: 3.0 Consensus size: 172
6693063 CGAAGCTTAG
* * * * * *
6693073 GTTTTTCAGCAATTGACCCATCATTTTGAGCCATGCTAGTCCACAGCTCTTAATGGTCTCCTTTA
1 GTTTTTCAGTAATTGACCCATCATTTCGAGCCTTGCCAGTCCACTGCTCTTAATGGTCCCCTTTA
* *
6693138 CCTTCAATTATAATGTGTGAATAGAAGCCTAGCTAAATATATATATCAACATCACCACTATCACC
66 CCTTCAATGATAATGTGTGAATAGAAGCCTAGCTAAATATATATATCAACATCACCACTATCACT
*
6693203 TTAAACTTCAGTGACTCTACAAAATGATCCATAGACAAACAAT
131 TTAAACTTCAGTGACTCTACAAAATGAT-TATAGACAAACAAT
* * * *
6693246 -TTTTTCAGTAGTTAATCCATCGTTTCGAGCCTTGCCAGTCCACTGCTCTTAATGGTCCCCTTTA
1 GTTTTTCAGTAATTGACCCATCATTTCGAGCCTTGCCAGTCCACTGCTCTTAATGGTCCCCTTTA
* *
6693310 CCTTCAATGATAATGTGTGAATATAAGCCTAGCTAAATATACATATATCAACATCACCACTACCA
66 CCTTCAATGATAATGTGTGAATAGAAGCCTAGCTAAATAT--ATATATCAACATCACCACTATCA
*
6693375 CTTTAAACTTCAGTGGCTCTACAAAATGATGTATAGACAAACAAT
129 CTTTAAACTTCAGTGACTCTACAAAATGAT-TATAGACAAACAAT
* *
6693420 GTTTTTCAGTAATTGACCCATCATTTCAAGCCTTGCCAGTTCACTGCTCTTAATGGTCCCCTTTA
1 GTTTTTCAGTAATTGACCCATCATTTCGAGCCTTGCCAGTCCACTGCTCTTAATGGTCCCCTTTA
*
6693485 CCTTCAATGATAATGTGTGAATAGAAGCCTAGCT--ATATATATATCAACAACACCACTATCACT
66 CCTTCAATGATAATGTGTGAATAGAAGCCTAGCTAAATATATATATCAACATCACCACTATCACT
*
6693548 TTAAACTTCAGTGACTCTACAAAATGA-TCTAGACAAACAAT
131 TTAAACTTCAGTGACTCTACAAAATGATTATAGACAAACAAT
6693589 ATTGTGCCAT
Statistics
Matches: 312, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
169 13 0.04
171 49 0.16
172 92 0.29
173 4 0.01
174 63 0.20
175 91 0.29
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (172 bp):
GTTTTTCAGTAATTGACCCATCATTTCGAGCCTTGCCAGTCCACTGCTCTTAATGGTCCCCTTTA
CCTTCAATGATAATGTGTGAATAGAAGCCTAGCTAAATATATATATCAACATCACCACTATCACT
TTAAACTTCAGTGACTCTACAAAATGATTATAGACAAACAAT
Found at i:6694326 original size:237 final size:237
Alignment explanation
Indices: 6693911--6694614 Score: 1126
Period size: 237 Copynumber: 3.0 Consensus size: 237
6693901 AAGCAATGAA
* * *
6693911 GCCTTTAAGCATTCAATGCCGTACGCTATCAGAAAAATGGTGTAGATTATCTTTCTGTTATCC-T
1 GCCTTTAAGCATTCAATGCTGTACACTATCAGAAAAATGGTGTAGATGATCTTTCTGTTA-CCTT
* *
6693975 TTTCGACAACTTTAGAAGACCATTATCATATGTGGTCTTACTCTGAAATCTTGGTTAATTTAAAA
65 TTTCAACAACTTTAGAAGACCATTATCATATGTGGTCTTACTCTGAAATCTTGATTAATTTAAAA
6694040 AGCAAATTGGAACTCAGAATAAGACCTAGAAAAAGATTAAGAAAACATATAATGTGGATAAAAGG
130 AGCAAATTGGAACTCAGAATAAGACCTAGAAAAAGATTAAGAAAACATATAATGTGGATAAAAGG
6694105 TGAAACTCTATCAATTTCCAAACAGTGACAAATTGCATTCAAT
195 TGAAACTCTATCAATTTCCAAACAGTGACAAATTGCATTCAAT
* ** **
6694148 GCCTTTAAGCTTTCAATGCTGTACACTATCAGGGAAATGGTGTAGATGATCTTTCCCTTACCTTT
1 GCCTTTAAGCATTCAATGCTGTACACTATCAGAAAAATGGTGTAGATGATCTTTCTGTTACCTTT
*
6694213 TTCAACAACTTTAGAAGACTATTATCATATGTGGTCTTACTCTGAAATCTTGATTAATTTAAAAA
66 TTCAACAACTTTAGAAGACCATTATCATATGTGGTCTTACTCTGAAATCTTGATTAATTTAAAAA
* * *
6694278 GCAAATTGGAACTCAGAATAAGACCTAGAAAAAGATTATGAAAACATATAACGTGGATACAAGGT
131 GCAAATTGGAACTCAGAATAAGACCTAGAAAAAGATTAAGAAAACATATAATGTGGATAAAAGGT
* *
6694343 GACAGTCTATCAATTTCCAAACAGTGACAAATTGCATTCAAT
196 GAAACTCTATCAATTTCCAAACAGTGACAAATTGCATTCAAT
* * * * *
6694385 GCCTCT-ACCATTGAATGCCT-TACACTATCAGAAAAATGGTGCAGATGATCTTTCTGTTATCTT
1 GCCTTTAAGCATTCAATG-CTGTACACTATCAGAAAAATGGTGTAGATGATCTTTCTGTTACCTT
* *
6694448 TTTTAACTACTTTAGAAGACCATTATCATATGTGGTCTTACTCTGAAATCTTGATTAATTTAAAA
65 TTTCAACAACTTTAGAAGACCATTATCATATGTGGTCTTACTCTGAAATCTTGATTAATTTAAAA
* *
6694513 AGCAAATTGGAACTCAGAATAAGACCTAGAAAAGGATAAAGAAAACATATAATGTGGATAAAAGG
130 AGCAAATTGGAACTCAGAATAAGACCTAGAAAAAGATTAAGAAAACATATAATGTGGATAAAAGG
* *
6694578 TGAAATTCTATCAATTTGCAAACAGTGACAAATTGCA
195 TGAAACTCTATCAATTTCCAAACAGTGACAAATTGCA
6694615 CCATTTGTTT
Statistics
Matches: 428, Mismatches: 37, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
236 203 0.47
237 225 0.53
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (237 bp):
GCCTTTAAGCATTCAATGCTGTACACTATCAGAAAAATGGTGTAGATGATCTTTCTGTTACCTTT
TTCAACAACTTTAGAAGACCATTATCATATGTGGTCTTACTCTGAAATCTTGATTAATTTAAAAA
GCAAATTGGAACTCAGAATAAGACCTAGAAAAAGATTAAGAAAACATATAATGTGGATAAAAGGT
GAAACTCTATCAATTTCCAAACAGTGACAAATTGCATTCAAT
Found at i:6694988 original size:18 final size:18
Alignment explanation
Indices: 6694965--6695001 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6694955 ATTAAAGGTG
6694965 CAAAACCTATCAAGATTT
1 CAAAACCTATCAAGATTT
6694983 CAAAACCTATCAAGATTT
1 CAAAACCTATCAAGATTT
6695001 C
1 C
6695002 TTTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.27
Consensus pattern (18 bp):
CAAAACCTATCAAGATTT
Found at i:6701172 original size:56 final size:57
Alignment explanation
Indices: 6701112--6701218 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 57
6701102 TGTGACGACC
*
6701112 AAAAAG-GTAACAAGCA-ATATATATATTTTTAAAATTTTAT-TTGTTAAAAAAAATTA
1 AAAAAGAGTAACAA--ATATATATATATTTTTAAAATTTTATGATGTTAAAAAAAATTA
***
6701168 AAAAAGAGTTTTAAATATATATATATTTTTAAAATTTTATGATGTTAAAAA
1 AAAAAGAGTAACAAATATATATATATTTTTAAAATTTTATGATGTTAAAAA
6701219 CAATATTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
55 1 0.02
56 30 0.68
57 13 0.30
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (57 bp):
AAAAAGAGTAACAAATATATATATATTTTTAAAATTTTATGATGTTAAAAAAAATTA
Done.